Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold57
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: 4071704
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 82236 characters in sequence are not A, C, G, or T
File 22 of 27
Found at i:3071455 original size:20 final size:20
Alignment explanation
Indices: 3071432--3071470 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
3071422 ATAATTTTAA
*
3071432 TAAAATATAAATAAAATATG
1 TAAAAAATAAATAAAATATG
*
3071452 TAAAAAATAATTAAAATAT
1 TAAAAAATAAATAAAATAT
3071471 AACAATATAT
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:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (20 bp):
TAAAAAATAAATAAAATATG
Found at i:3071537 original size:19 final size:17
Alignment explanation
Indices: 3071504--3071541 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 17
3071494 ATATTAATTC
3071504 AAATTAATAAAATATTA
1 AAATTAATAAAATATTA
3071521 AAATTATATATAAATATTA
1 AAATTA-ATA-AAATATTA
3071540 AA
1 AA
3071542 TACTTGATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.32
18 3 0.16
19 10 0.53
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
AAATTAATAAAATATTA
Found at i:3073321 original size:13 final size:13
Alignment explanation
Indices: 3073303--3073327 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3073293 TTTTTATATT
3073303 TAAAAAAATTAAC
1 TAAAAAAATTAAC
3073316 TAAAAAAATTAA
1 TAAAAAAATTAA
3073328 TGTACATAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (13 bp):
TAAAAAAATTAAC
Found at i:3073606 original size:2 final size:2
Alignment explanation
Indices: 3073599--3073630 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
3073589 AGGTTGAATA
3073599 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3073631 TACTGAATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3073862 original size:14 final size:14
Alignment explanation
Indices: 3073827--3073858 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
3073817 ATGACCTTAA
3073827 ATTTTT-AATATAT
1 ATTTTTAAATATAT
3073840 ATTTTTAAATA-AT
1 ATTTTTAAATATAT
3073853 ATTTTT
1 ATTTTT
3073859 TAAAAATGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 14 0.78
14 4 0.22
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
ATTTTTAAATATAT
Found at i:3078029 original size:72 final size:72
Alignment explanation
Indices: 3077866--3078811 Score: 912
Period size: 72 Copynumber: 13.1 Consensus size: 72
3077856 GATTTTCCGT
* * * *** * *
3077866 TTTCTCACCATCCGTCTTTCTATTGGCTACAAAAGTTGATTCTTCCTTACCCATTTGCACATTAT
1 TTTCCCACCATCCGTCTTTCCATTGGCTTCAATCTTTGATTCTTCCTGACCCTTTTGCACATTAT
*
3077931 TATCTTC
66 TACCTTC
** * * * * * * **
3077938 TTTTTCACCA-CCTGACTTTCCTTTAG-TTCCAGTATTTGATTCTTCCTGACCCTTTTTCATGTT
1 TTTCCCACCATCC-GTCTTTCCATTGGCTT-CAATCTTTGATTCTTCCTGACCCTTTTGCACATT
3078001 ATTACCTTC
64 ATTACCTTC
** * * *
3078010 ACTCCCACTATCCGTCTTTCC-TTCAGCTTCAATCTTTGATACTTCCTGACCCTTTTGCACATTA
1 TTTCCCACCATCCGTCTTTCCATT-GGCTTCAATCTTTGATTCTTCCTGACCCTTTTGCACATTA
* *
3078074 TTTCCATC
65 TTACCTTC
* * **
3078082 TTTCTCAACATCCGTCTTTCCATTGATTTCAATCTTTGATTCTTCCTGACCCTTTTGCACATTAT
1 TTTCCCACCATCCGTCTTTCCATTGGCTTCAATCTTTGATTCTTCCTGACCCTTTTGCACATTAT
* *
3078147 TTCCATC
66 TACCTTC
* *
3078154 TTTCTCACCATCCGTCTTTCCATTGGCTTCAACCTTTGATTCTTCCTGACCCTTTTGCACATTAT
1 TTTCCCACCATCCGTCTTTCCATTGGCTTCAATCTTTGATTCTTCCTGACCCTTTTGCACATTAT
**
3078219 T-TGTGTC
66 TACCT-TC
* * * *
3078226 ATTCTCACCATCGGTCTTTCC-TTCGGCTTCAACCTTTGATTCTTCCTGACCCTTTTGCACATTA
1 TTTCCCACCATCCGTCTTTCCATT-GGCTTCAATCTTTGATTCTTCCTGACCCTTTTGCACATTA
**
3078290 TT-TGTGTC
65 TTACCT-TC
* * ** *
3078298 TTTCTCACCATCAGTCTTTCC-TTCGGCTTCAA-CTTTTGATTCTTCCTGACCCTTTTGCATGTC
1 TTTCCCACCATCCGTCTTTCCATT-GGCTTCAATC-TTTGATTCTTCCTGACCCTTTTGCACATT
3078361 ATTACCTTC
64 ATTACCTTC
* *
3078370 TCTCCCACCATCCGCCTTTCCATTGG-TGTCAATCTTTGATTCTTTCC-GACCCTTTTGCACATT
1 TTTCCCACCATCCGTCTTTCCATTGGCT-TCAATCTTTGATTC-TTCCTGACCCTTTTGCACATT
3078433 ATTACCTTC
64 ATTACCTTC
* * * *
3078442 TCTCCCACCATCCGTCTTTCCCTT-GATTCCAATCTTTGATTCTTCCTGATCCTTTTGCACATTA
1 TTTCCCACCATCCGTCTTTCCATTGGCTT-CAATCTTTGATTCTTCCTGACCCTTTTGCACATTA
* *
3078506 TTTCCATC
65 TTACCTTC
* * *
3078514 TTTCTCACCATCCGTCTTTCCATTGGCTTCAATGTTTGATTCTTCCTGACCCTTTTCCACATTAT
1 TTTCCCACCATCCGTCTTTCCATTGGCTTCAATCTTTGATTCTTCCTGACCCTTTTGCACATTAT
**
3078579 T-TGTGTC
66 TACCT-TC
* * * * * *
3078586 TTTCTCACCATCGGCCTTTCCATTGGCTTCAATTTTTGACTCTTCCTGACCCTTTTGCACAATAT
1 TTTCCCACCATCCGTCTTTCCATTGGCTTCAATCTTTGATTCTTCCTGACCCTTTTGCACATTAT
**
3078651 T-TGTGTC
66 TACCT-TC
* * * * *
3078658 TTTCTCACCATCGGTCTTTCCATTGGCTTCAATCCTTGATTCTTCCTGACCCTTTAGCATATTAT
1 TTTCCCACCATCCGTCTTTCCATTGGCTTCAATCTTTGATTCTTCCTGACCCTTTTGCACATTAT
*
3078723 TACCTTT
66 TACCTTC
** * ** * * *
3078730 TTTGTCACCAGCCGTCTTTCTTTTGGCCTT-AACCTTCGATTCTTCCTGACCTTTTTGCACATTA
1 TTTCCCACCATCCGTCTTTCCATTGG-CTTCAATCTTTGATTCTTCCTGACCCTTTTGCACATTA
**
3078794 TCGCCTTC
65 TTACCTTC
3078802 TTTCCCACCA
1 TTTCCCACCA
3078812 CCCCTCTTCC
Statistics
Matches: 745, Mismatches: 108, Indels: 42
0.83 0.12 0.05
Matches are distributed among these distances:
71 15 0.02
72 709 0.95
73 21 0.03
ACGTcount: A:0.16, C:0.31, G:0.10, T:0.44
Consensus pattern (72 bp):
TTTCCCACCATCCGTCTTTCCATTGGCTTCAATCTTTGATTCTTCCTGACCCTTTTGCACATTAT
TACCTTC
Found at i:3080359 original size:16 final size:16
Alignment explanation
Indices: 3080338--3080380 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
3080328 TTAAATTTAC
3080338 AAATATAAATTATTAT
1 AAATATAAATTATTAT
* *
3080354 AAATATAAAATATTTT
1 AAATATAAATTATTAT
3080370 AAATA-AAATTA
1 AAATATAAATTA
3080381 AAATATAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
15 5 0.21
16 19 0.79
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
AAATATAAATTATTAT
Found at i:3081695 original size:21 final size:20
Alignment explanation
Indices: 3081669--3081709 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
3081659 TTTAAATAGA
*
3081669 TTTATTTATTAATTTATAATT
1 TTTATTTATTAAATTA-AATT
*
3081690 TTTATTTTTTAAATTAAATT
1 TTTATTTATTAAATTAAATT
3081710 GATTAAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTATTTATTAAATTAAATT
Found at i:3081883 original size:7 final size:7
Alignment explanation
Indices: 3081871--3081901 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
3081861 AATTAATTAA
3081871 TTTAAAT
1 TTTAAAT
3081878 TTTAAAT
1 TTTAAAT
3081885 TTTAAAT
1 TTTAAAT
3081892 TTTAAAT
1 TTTAAAT
3081899 TTT
1 TTT
3081902 TTAGATAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (7 bp):
TTTAAAT
Found at i:3083067 original size:22 final size:22
Alignment explanation
Indices: 3083012--3083058 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
3083002 GTAGTTTATA
3083012 TTATCTATA-TTATAATTAATAT
1 TTAT-TATATTTATAATTAATAT
*
3083034 TTATTATATTTATAATTATTAT
1 TTATTATATTTATAATTAATAT
3083056 TTA
1 TTA
3083059 AATTTTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (22 bp):
TTATTATATTTATAATTAATAT
Found at i:3083400 original size:2 final size:2
Alignment explanation
Indices: 3083395--3083436 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
3083385 AGAGATATCG
*
3083395 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3083437 CTAAAACATT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:3084687 original size:22 final size:22
Alignment explanation
Indices: 3084644--3084687 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
3084634 ATACTTTAAA
* *
3084644 AATTATTATTTATCTCATATAT
1 AATTATTATTTATCTAAAATAT
3084666 AATT-TTATTTAGTCTAAAATAT
1 AATTATTATTTA-TCTAAAATAT
3084688 GTTTAACACT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (22 bp):
AATTATTATTTATCTAAAATAT
Found at i:3091183 original size:549 final size:548
Alignment explanation
Indices: 3090286--3094681 Score: 6580
Period size: 549 Copynumber: 8.0 Consensus size: 548
3090276 TAAACCCACC
* *
3090286 TTTTCCTCCCTCAACTGACCATTCTCTTCTATTTTAGTTCGTAAGTCCTCTTCCAGTTCACCTTT
1 TTTTCCTCCCTCAACTGACCATTCTCTTCAATTTTAGTTCTTAAGTCCTCTTCCAGTTCACCTTT
* * * * * * * *
3090351 CTGATTCTTTAAAGAATTGACCTCGACTTCTAGATCCTTAATTTGTGCCAGCAAA-CTGTCTTTC
66 CTGACTCTTCAGAGAATTGACTTCAAATTCTAGATCCTTCATTTGTGCCAGAAAACCT-TCTTTC
* * * * * *
3090415 TCCAGCAGAACTCTCTGTTGGTCCTCAGTCTTGCTTACAATCTCTTCTTTTGCCTTTTCTATCTC
130 TCCTGCAAAACTCTCTGTTGATCCTCGGTCTTGCTCACTATCTCTTCTTTTGCCTTTTCTATCTC
* * * * *
3090480 AATCACATAATCAGAAATAGTTTGAGTTTTTCTCTCAAGCTGCACCTCCAGTTCTGCTTTCTGGC
195 AATCACATAATCTGAAATAGCTTGAGTTTTTCTCTCGAGCTGCACTTCGAGTTCTGCTTTCTGGC
* * ** **
3090545 TATGCAAGGACT-CCAATTCCTGCTGCAAAGTATTTATCTGATCCATTAAGCTTTTGACTTGAGT
260 TGTGCAGGGA-TGCCAGCTCCTGCTGCAAAGTATTTATCTGATCCATTAAGCCCTTGACTTGAGT
* *
3090609 TGATGCTTCATCATCCTTT-AATACAATATGTTGTTCCAACTGAGCTTTCTGGGTGCGTACTAAC
324 TGATGCTTCATCAT-CTTTAAATACAATATGTTCTTCCAACTGAGCTTTCTGGGTGCGTACTGAC
* *
3090673 TCAATGTCTATTAGCAGATTGTTGATCTGCACTGTCAAATTCTCCACTCTAG-TCAATGATTCTT
388 TCCATGTCTACTAGCAGATTGTTGATCTGCACTGTCAAATTCTCCACTCTAGAT-AATGATTCTT
3090737 TCTCATTATCCTCAAACTTCTTTGTAAGAGTCAAAAGTTCTTCTTCTCTCTTCTTTGACATCATC
452 TCTCATTATCCTCAAACTTCTTTGTAAGAGTCAAAAGTTCTTCTTCTCTCTT-TTTGACATCATC
* *
3090802 TCAAGTTCT-AAAGTTCGGGATTGCAGTCCTATA
516 TCAAGTTCTGAAA-TTTGGGATTGAAGTCCTATA
* *
3090835 GTTTCCTCCCTCAACTGACCATTCTCATCAATTTTAGTTCTTAAGTCCTCTTCCAGTTCACCTTT
1 TTTTCCTCCCTCAACTGACCATTCTCTTCAATTTTAGTTCTTAAGTCCTCTTCCAGTTCACCTTT
* * * *
3090900 CTGATTCTTCAGAGAACTGACTTCAAATTCTAGATCCTTTATTTGCGCCAGAAAACCTTCTTTCT
66 CTGACTCTTCAGAGAATTGACTTCAAATTCTAGATCCTTCATTTGTGCCAGAAAACCTTCTTTCT
* * * *
3090965 CCTGCAGAACTCTCTGATGATCCTCGGTCTTGCTTACTATCTCATCTTTTGCCTTTTCTATCTCA
131 CCTGCAAAACTCTCTGTTGATCCTCGGTCTTGCTCACTATCTCTTCTTTTGCCTTTTCTATCTCA
*
3091030 ATCACATAATCTGAAATAGCTTGAGTTTTTCTCTCGAGCTGCACTTCGAGTTCCGCTTTCTGGCT
196 ATCACATAATCTGAAATAGCTTGAGTTTTTCTCTCGAGCTGCACTTCGAGTTCTGCTTTCTGGCT
* * * *
3091095 ATGCAGGGACT-CCAGCTCCTGCTGCAAACTATTTATCTGATCCATTAAGCTCTTGACTTGAGCT
261 GTGCAGGGA-TGCCAGCTCCTGCTGCAAAGTATTTATCTGATCCATTAAGCCCTTGACTTGAGTT
3091159 GATGCTTCATCATCTTTAAATACAATATGTTCTTCCAACTGAGCTTTCTGGGTGCGTACTGACTC
325 GATGCTTCATCATCTTTAAATACAATATGTTCTTCCAACTGAGCTTTCTGGGTGCGTACTGACTC
* *
3091224 GATGTCTACTAGCAGATTGTTGATCTGCACTGTCAAATTCTCCACTCTAGATAACGATTCTTTCT
390 CATGTCTACTAGCAGATTGTTGATCTGCACTGTCAAATTCTCCACTCTAGATAATGATTCTTTCT
* * * *
3091289 CAGTATCCTCAAACTGCTTTGTGAGAGTCAAAAGTTCTTCTTCTCTCTTTATTGACATCATCTCG
455 CATTATCCTCAAACTTCTTTGTAAGAGTCAAAAGTTCTTCTTCTCTCTTT-TTGACATCATCTCA
*
3091354 AGTTCTGAAATTTGGGATTGCAGTCCTATA
519 AGTTCTGAAATTTGGGATTGAAGTCCTATA
* * * * * * *
3091384 TTTTCTTGCCTCAATTGATCATTTTCTTCAATTTT-GTTTCTTAAGTCATCTTCCAGTCCACCTT
1 TTTTCCTCCCTCAACTGACCATTCTCTTCAATTTTAG-TTCTTAAGTCCTCTTCCAGTTCACCTT
** *
3091448 TCTGACTCTTCAGAGAATTGACTTCAGCTTCTAGATCCTTCATTTGTGCTA-AAATACCTTCTTT
65 TCTGACTCTTCAGAGAATTGACTTCAAATTCTAGATCCTTCATTTGTGCCAGAAA-ACCTTCTTT
* *
3091512 CTCCTGCAAAACTCTATGTTGATCCTCGGTCTTGCTCACTATCTCTTCCTTTGCCTTTTCTATCT
129 CTCCTGCAAAACTCTCTGTTGATCCTCGGTCTTGCTCACTATCTCTTCTTTTGCCTTTTCTATCT
* * *
3091577 CAATCACATAATCTGAAATGGCTTGAGTTTGTCTCTGGAGCTGCACTTCGAGTTCTGCTTTCTGG
194 CAATCACATAATCTGAAATAGCTTGAGTTTTTCTCTCGAGCTGCACTTCGAGTTCTGCTTTCTGG
3091642 CTGTGCAGGGATGCCAGCTCCTGCTGCAAAGTATTTATCTGATCCATTAAGCCCTTGACTTGAGT
259 CTGTGCAGGGATGCCAGCTCCTGCTGCAAAGTATTTATCTGATCCATTAAGCCCTTGACTTGAGT
* *
3091707 TGATGCTTCATCATCTTTGAATACAATATGTTCTTCCAACTGAGCTTTCTGGGTGCGTAGTGACT
324 TGATGCTTCATCATCTTTAAATACAATATGTTCTTCCAACTGAGCTTTCTGGGTGCGTACTGACT
*
3091772 CCATGTCTGCTAGCAGATTGTTGATCTGCACTGTCAAATTCTCCACTCTAGATAATGATTCTTTC
389 CCATGTCTACTAGCAGATTGTTGATCTGCACTGTCAAATTCTCCACTCTAGATAATGATTCTTTC
* * *
3091837 CCATTATCCTCAAACTTCTTTGTGAGAGTCAAAAGTTCTTCTTCTCTCTTTTCTGACATCATCTT
454 TCATTATCCTCAAACTTCTTTGTAAGAGTCAAAAGTTCTTCTTCTCTCTTTT-TGACATCATCTC
* *
3091902 GAGTTCTGAAATTTGGGATTGGAGTCCTATA
518 AAGTTCTGAAATTTGGGATTGAAGTCCTATA
* * *
3091933 TTTTCCTCCCTCAACAGACCATTCTCTTTAATTTTAGTTCTCAAGTCCTCTTCCAGTTCACCTTT
1 TTTTCCTCCCTCAACTGACCATTCTCTTCAATTTTAGTTCTTAAGTCCTCTTCCAGTTCACCTTT
* * * * *
3091998 CTGATTCTTCAGAGAATAGACCTCAAATTCTAGATCCTTCATTTGTGCCAGCAAACCCTCTTTCT
66 CTGACTCTTCAGAGAATTGACTTCAAATTCTAGATCCTTCATTTGTGCCAGAAAACCTTCTTTCT
* *
3092063 CCTGCAAAACTCTCTGTTGACCCTCGGTCTTGCTCACTATCTCTTCTTTTGCCTTTTCTACCTCA
131 CCTGCAAAACTCTCTGTTGATCCTCGGTCTTGCTCACTATCTCTTCTTTTGCCTTTTCTATCTCA
3092128 ATCACATAATCTGAAATAGCTTGAGTTTTTCTCTCGAGCTGCACTTCGAGTTCTGCTTTCTGGCT
196 ATCACATAATCTGAAATAGCTTGAGTTTTTCTCTCGAGCTGCACTTCGAGTTCTGCTTTCTGGCT
* * *
3092193 GTGCAGGGATGCGAGCTGCTGCTGCAAAGTATTTATCTGATCCATCAAGCCCTTGACTTGAGTTG
261 GTGCAGGGATGCCAGCTCCTGCTGCAAAGTATTTATCTGATCCATTAAGCCCTTGACTTGAGTTG
*
3092258 ATGCTTCATCCAT-TTTAAGTACAATATGTTCTTCCAACTGAGCTTTCTGGGTGCGTACTGACTC
326 ATGCTTCAT-CATCTTTAAATACAATATGTTCTTCCAACTGAGCTTTCTGGGTGCGTACTGACTC
* ** * *
3092322 CATGCCTACTAGCAGATTGTCAATCTGCACTGTCAAATTCTCCACTCTAGACAATGATTCTTTTT
390 CATGTCTACTAGCAGATTGTTGATCTGCACTGTCAAATTCTCCACTCTAGATAATGATTCTTTCT
* * *
3092387 CATTATCCTCAAACTTCTTTATAAGAGCCAAAAGTTCTTCTTCTCTCTTGTTTGACATAATCTCA
455 CATTATCCTCAAACTTCTTTGTAAGAGTCAAAAGTTCTTCTTCTCTCTT-TTTGACATCATCTCA
3092452 AGTTCTGAAATTTGGGATTGAAGTCCTATA
519 AGTTCTGAAATTTGGGATTGAAGTCCTATA
* * * * * * **
3092482 TTCTCCTCCATCAACTGACCATTGTCTTCAATTTTAGATCTTAATTCCTGC-TCCAGTCCAGATT
1 TTTTCCTCCCTCAACTGACCATTCTCTTCAATTTTAGTTCTTAAGTCCT-CTTCCAGTTCACCTT
*
3092546 TCTGACTCTTCAGAGAATTGACTTCAAATTCTAGATCCTTCATTTGTGCCAGAATACCTTCTTTC
65 TCTGACTCTTCAGAGAATTGACTTCAAATTCTAGATCCTTCATTTGTGCCAGAAAACCTTCTTTC
*
3092611 TCCTGCAAAACTCTCTGTTGACCCTCGGTCTTGCTCACTATCTCTTCTTTTGCCTTTTCTATCTC
130 TCCTGCAAAACTCTCTGTTGATCCTCGGTCTTGCTCACTATCTCTTCTTTTGCCTTTTCTATCTC
3092676 AATCACATAATCTGAAATAGCTTGAGTTTTTCTCTCGAGCTGCACTTCGAGTTCTGCTTTCTGGC
195 AATCACATAATCTGAAATAGCTTGAGTTTTTCTCTCGAGCTGCACTTCGAGTTCTGCTTTCTGGC
* * *
3092741 TGTGCAGGGATGCGAGCTGCTGCTGCAAAGTATTTATCTGATCCATCAAGCCCTTGACTTGAGTT
260 TGTGCAGGGATGCCAGCTCCTGCTGCAAAGTATTTATCTGATCCATTAAGCCCTTGACTTGAGTT
3092806 GATGCTTCATCCAT-TTTAAATACAATATGTTCTTCCAACTGAGCTTTCTGGGTGCGTACTGACT
325 GATGCTTCAT-CATCTTTAAATACAATATGTTCTTCCAACTGAGCTTTCTGGGTGCGTACTGACT
** * *
3092870 CCATGTCTACTAGCAGATTGTCAATCTGCACTGTCAAATTCTCCACTCTAGACAATGATTCTTTT
389 CCATGTCTACTAGCAGATTGTTGATCTGCACTGTCAAATTCTCCACTCTAGATAATGATTCTTTC
* *
3092935 TCATTATCCTCAAACTTCTTTATAAGAGTCAAAAGTTCTTCTTCTCTCTTTTTTGACATAATCTC
454 TCATTATCCTCAAACTTCTTTGTAAGAGTCAAAAGTTCTTCTTCTCTC-TTTTTGACATCATCTC
3093000 AAGTTCTGAAATTTGGGATTGAAGTCCTATA
518 AAGTTCTGAAATTTGGGATTGAAGTCCTATA
* * * * * * **
3093031 TTCTCCTCCATCAACTGACCATTGTCTTCAATTTTAGATCTTAATTCCTGC-TCCAGTCCAGATT
1 TTTTCCTCCCTCAACTGACCATTCTCTTCAATTTTAGTTCTTAAGTCCT-CTTCCAGTTCACCTT
*
3093095 TCTGACTCTTCAGAGAATTGACTTCAAATTCTAGATCCTTCATTTGTGCCAGAATACCTTCTTTC
65 TCTGACTCTTCAGAGAATTGACTTCAAATTCTAGATCCTTCATTTGTGCCAGAAAACCTTCTTTC
* *
3093160 TCCTGCAAAACTCTCTGTTGACCCTCGGTCTTGCTCACTATCTCTTCTTTTGCCTTTTCTACCTC
130 TCCTGCAAAACTCTCTGTTGATCCTCGGTCTTGCTCACTATCTCTTCTTTTGCCTTTTCTATCTC
3093225 AATCACATAATCTGAAATAGCTTGAGTTTTTCTCTCGAGCTGCACTTCGAGTTCTGCTTTCTGGC
195 AATCACATAATCTGAAATAGCTTGAGTTTTTCTCTCGAGCTGCACTTCGAGTTCTGCTTTCTGGC
* * *
3093290 TGTGCAGGGATGCGAGCTGCTGCTGCAAAGTATTTATCTGATCCATCAAGCCCTTGACTTGAGTT
260 TGTGCAGGGATGCCAGCTCCTGCTGCAAAGTATTTATCTGATCCATTAAGCCCTTGACTTGAGTT
* *
3093355 GATGCTTCATCATCTTTAAATACAATATGTTCTTCCAACTGAGCTTTCTGGTTGCGCAGC-GACT
325 GATGCTTCATCATCTTTAAATACAATATGTTCTTCCAACTGAGCTTTCTGGGTGCGTA-CTGACT
*
3093419 CAATGTCTACTAGCAGATTGTTGATCTGCACTGTCAAATTCTCCACTCTAGATAATGATTCTTTC
389 CCATGTCTACTAGCAGATTGTTGATCTGCACTGTCAAATTCTCCACTCTAGATAATGATTCTTTC
* * *
3093484 TCCTTATCCTCAAACTTCTTTGTAAGAGTCAAAAGTTTTTCTTCTCTCTTTTCTGACATCATCTT
454 TCATTATCCTCAAACTTCTTTGTAAGAGTCAAAAGTTCTTCTTCTCTCTTTT-TGACATCATCTC
* *
3093549 GAGTTCTGAAATTTGAGATTGAAGTCCTATA
518 AAGTTCTGAAATTTGGGATTGAAGTCCTATA
*
3093580 TTTTCCTCCCTCAACTGACCATTCTCTTCAATTTTAGTTCTCAAGTCCTCTTCCAGTTCACCTTT
1 TTTTCCTCCCTCAACTGACCATTCTCTTCAATTTTAGTTCTTAAGTCCTCTTCCAGTTCACCTTT
* * * *
3093645 CTGACTCTTCAGAGAATAGA-TCTCAAATTCTAGATCCTTTATTTGTGCCAGCAAACCCTCTTTC
66 CTGACTCTTCAGAGAATTGACT-TCAAATTCTAGATCCTTCATTTGTGCCAGAAAACCTTCTTTC
* * * *
3093709 TCCCGCAGAACTCTCTGTTGATCCTCAGTCTTGCTCACTATCTCTTCCTTTGCCTTTTCTATCTC
130 TCCTGCAAAACTCTCTGTTGATCCTCGGTCTTGCTCACTATCTCTTCTTTTGCCTTTTCTATCTC
* * * * * *
3093774 AATCACATAATCTGAAATAGCTTGAGTTCTTCTCTCAAGCTGCACTTCCAGTTCGGTTTTCTGAC
195 AATCACATAATCTGAAATAGCTTGAGTTTTTCTCTCGAGCTGCACTTCGAGTTCTGCTTTCTGGC
* * * **
3093839 TGTGCAGGGACT-CCAGCTCCCGCTGCAAAGTATTTTTCTGATCCATTAAGCTCTCAACTTGAGT
260 TGTGCAGGGA-TGCCAGCTCCTGCTGCAAAGTATTTATCTGATCCATTAAGCCCTTGACTTGAGT
* *
3093903 TGATGCTTCATCCAT-TTTAAATACAATACGTTCTTCCAACTGAGCTTTCTGGGTGCGTAGTGAC
324 TGATGCTTCAT-CATCTTTAAATACAATATGTTCTTCCAACTGAGCTTTCTGGGTGCGTACTGAC
*
3093967 TCCATGTCTACTAGCAGACTGTTGATCTGCACTGTCAAATTCTCCACTCTAGATAATGATTCTTT
388 TCCATGTCTACTAGCAGATTGTTGATCTGCACTGTCAAATTCTCCACTCTAGATAATGATTCTTT
* *
3094032 CTCCTTATCCTCAAACTTCTTTGTAAGAGTCAAAAGTTCTTCTTCCCTCTTTTCTGACATCATCT
453 CTCATTATCCTCAAACTTCTTTGTAAGAGTCAAAAGTTCTTCTTCTCTCTTTT-TGACATCATCT
** * * *
3094097 TGAGTTCTGAAATTTGAGATTGGAGTCCTAAA
517 CAAGTTCTGAAATTTGGGATTGAAGTCCTATA
* * *
3094129 TTTTCTTCCCTCAACTGACCATTCTCTTCAATTTTAGTTCTCAAATCCTCTTCCAGTTCACCTTT
1 TTTTCCTCCCTCAACTGACCATTCTCTTCAATTTTAGTTCTTAAGTCCTCTTCCAGTTCACCTTT
* * * *
3094194 CTGATTCTTCAGAGAATAGA-TCTCAAATTCTAGATCCTTTATTTGTGCCAGCAAACAC-TCTTT
66 CTGACTCTTCAGAGAATTGACT-TCAAATTCTAGATCCTTCATTTGTGCCAGAAAAC-CTTCTTT
* * * * * *
3094257 CTCCTGCAGAACACTCCGTTGATCCTCAGTCTTGCTCACTATCTCTTCCTTTGCCTTTTCTATAT
129 CTCCTGCAAAACTCTCTGTTGATCCTCGGTCTTGCTCACTATCTCTTCTTTTGCCTTTTCTATCT
* * * *
3094322 CAATCAAATAATCTGAAATAGCTTGAGTTTTTCTCTCGAGCTGCAGTTCCAATTCTGCTTTCTGG
194 CAATCACATAATCTGAAATAGCTTGAGTTTTTCTCTCGAGCTGCACTTCGAGTTCTGCTTTCTGG
* *
3094387 CTGTGCAGGGACT-CCAGCTCCTGCTGCAAAGTATTTATCTGATCCATTAAGCTCTTGATTTGAG
259 CTGTGCAGGGA-TGCCAGCTCCTGCTGCAAAGTATTTATCTGATCCATTAAGCCCTTGACTTGAG
** * * *
3094451 TCAATGCTTCATCATCTTTAAATACAATATATTCTTCCAGCTGAGCTTTCTGGGTGCGTAGTGAC
323 TTGATGCTTCATCATCTTTAAATACAATATGTTCTTCCAACTGAGCTTTCTGGGTGCGTACTGAC
* * * *
3094516 TCCATGTCTAATAGTAGATTGTTGATCTGCACTTTCAAATTCTCCACTCTAGACAATGATTCTTT
388 TCCATGTCTACTAGCAGATTGTTGATCTGCACTGTCAAATTCTCCACTCTAGATAATGATTCTTT
* * * *
3094581 CTCAGTATCCTCAAATTTCTTGGTGAGAGTCAAAAGTTCTTCTTCTCTCTTTTTTGACATCATCT
453 CTCATTATCCTCAAACTTCTTTGTAAGAGTCAAAAGTTCTTCTTCTCTC-TTTTTGACATCATCT
*
3094646 CAAGTTCTGAAATTTGGGATTGCAGTCCTATA
517 CAAGTTCTGAAATTTGGGATTGAAGTCCTATA
3094678 TTTT
1 TTTT
3094682 GCTCTCCCAG
Statistics
Matches: 3574, Mismatches: 247, Indels: 52
0.92 0.06 0.01
Matches are distributed among these distances:
548 23 0.01
549 3524 0.99
550 27 0.01
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.38
Consensus pattern (548 bp):
TTTTCCTCCCTCAACTGACCATTCTCTTCAATTTTAGTTCTTAAGTCCTCTTCCAGTTCACCTTT
CTGACTCTTCAGAGAATTGACTTCAAATTCTAGATCCTTCATTTGTGCCAGAAAACCTTCTTTCT
CCTGCAAAACTCTCTGTTGATCCTCGGTCTTGCTCACTATCTCTTCTTTTGCCTTTTCTATCTCA
ATCACATAATCTGAAATAGCTTGAGTTTTTCTCTCGAGCTGCACTTCGAGTTCTGCTTTCTGGCT
GTGCAGGGATGCCAGCTCCTGCTGCAAAGTATTTATCTGATCCATTAAGCCCTTGACTTGAGTTG
ATGCTTCATCATCTTTAAATACAATATGTTCTTCCAACTGAGCTTTCTGGGTGCGTACTGACTCC
ATGTCTACTAGCAGATTGTTGATCTGCACTGTCAAATTCTCCACTCTAGATAATGATTCTTTCTC
ATTATCCTCAAACTTCTTTGTAAGAGTCAAAAGTTCTTCTTCTCTCTTTTTGACATCATCTCAAG
TTCTGAAATTTGGGATTGAAGTCCTATA
Found at i:3098553 original size:2 final size:2
Alignment explanation
Indices: 3098548--3098585 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
3098538 AGCCAAAAAA
*
3098548 AG AG AG AG AG AG AG AG AG AG AG AG GG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
3098586 TTCTTTGAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (2 bp):
AG
Found at i:3099192 original size:17 final size:18
Alignment explanation
Indices: 3099167--3099201 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
3099157 TTTAAATAAT
3099167 TTAGAGATTAA-CATTAA
1 TTAGAGATTAATCATTAA
*
3099184 TTAGTGATTAATCATTAA
1 TTAGAGATTAATCATTAA
3099202 AAAAAATACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.43, C:0.06, G:0.11, T:0.40
Consensus pattern (18 bp):
TTAGAGATTAATCATTAA
Found at i:3099815 original size:153 final size:153
Alignment explanation
Indices: 3099537--3099840 Score: 502
Period size: 153 Copynumber: 2.0 Consensus size: 153
3099527 TGTTTCATGT
3099537 TTTTCTTTCGTAATCTCCTCCAATTCTGCCAGCCGAGTCTCGAGCTCGGCCACGGCTTTCAACAG
1 TTTTCTTTCGTAATCTCCTCCAATTCTGCCAGCCGAGTCTCGAGCTCGGCCACGGCTTTCAACAG
* * *
3099602 CTTCAGCTTTTCTTCTGCTTCCTCACTCAACTTCGCTTCCAAAGTCGAAACCATCTCCCTCAACG
66 CTTCAGCTTTTCTTCTCCTTCATCACTCAACTTCGCTTCCAAAGTCGAAACCATCTCCCTCAACA
*
3099667 ACTCGTTTTCCTTATCGGTTTGC
131 ACTCATTTTCCTTATCGGTTTGC
* * *
3099690 TTTTCTTTCGTAGTCTCCTCCAATTCTGCCA-CCTGAGTCTTGAGCTCGGCCACGGCTTTCAATA
1 TTTTCTTTCGTAATCTCCTCCAATTCTGCCAGCC-GAGTCTCGAGCTCGGCCACGGCTTTCAACA
* * *
3099754 GCTTCAGCTTTTCTTCTCCTTCATCACTCAACTTTGCTTCCAAAGTTGAAACCTTCTCCCTCAAC
65 GCTTCAGCTTTTCTTCTCCTTCATCACTCAACTTCGCTTCCAAAGTCGAAACCATCTCCCTCAAC
3099819 AACTCATTTTCCTTATCGGTTT
130 AACTCATTTTCCTTATCGGTTT
3099841 CAGATAAAAC
Statistics
Matches: 140, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
152 2 0.01
153 138 0.99
ACGTcount: A:0.17, C:0.33, G:0.13, T:0.36
Consensus pattern (153 bp):
TTTTCTTTCGTAATCTCCTCCAATTCTGCCAGCCGAGTCTCGAGCTCGGCCACGGCTTTCAACAG
CTTCAGCTTTTCTTCTCCTTCATCACTCAACTTCGCTTCCAAAGTCGAAACCATCTCCCTCAACA
ACTCATTTTCCTTATCGGTTTGC
Found at i:3112864 original size:2 final size:2
Alignment explanation
Indices: 3112857--3112889 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
3112847 GTTGCAGCAC
3112857 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3112890 GTTATAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3114137 original size:28 final size:27
Alignment explanation
Indices: 3114102--3114182 Score: 80
Period size: 28 Copynumber: 3.0 Consensus size: 27
3114092 ATATAATTTA
3114102 ATTTAAATATTATTTAATAATAAAAATT
1 ATTTAAAT-TTATTTAATAATAAAAATT
* *
3114130 ATTTAAATTTAATT-AT-A-AAATATT
1 ATTTAAATTTATTTAATAATAAAAATT
*
3114154 AATTTAAATTT-TTAAAATAATAAAAATT
1 -ATTTAAATTTATT-TAATAATAAAAATT
3114182 A
1 A
3114183 AACTTAAATT
Statistics
Matches: 43, Mismatches: 5, Indels: 11
0.73 0.08 0.19
Matches are distributed among these distances:
24 7 0.16
25 11 0.26
26 4 0.09
27 7 0.16
28 14 0.33
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (27 bp):
ATTTAAATTTATTTAATAATAAAAATT
Found at i:3114147 original size:23 final size:25
Alignment explanation
Indices: 3114113--3114164 Score: 81
Period size: 23 Copynumber: 2.2 Consensus size: 25
3114103 TTTAAATATT
3114113 ATTTAATAATAAAA-ATT-ATTTAA
1 ATTTAATAATAAAATATTAATTTAA
*
3114136 ATTTAATTATAAAATATTAATTTAA
1 ATTTAATAATAAAATATTAATTTAA
3114161 ATTT
1 ATTT
3114165 TTAAAATAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 13 0.50
24 3 0.12
25 10 0.38
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (25 bp):
ATTTAATAATAAAATATTAATTTAA
Found at i:3114175 original size:24 final size:24
Alignment explanation
Indices: 3114088--3114175 Score: 65
Period size: 25 Copynumber: 3.5 Consensus size: 24
3114078 TATTTTTTAA
*
3114088 TTTAATATAAT-TTAATTTAAATATT
1 TTTAAAATAATATTAATTT-AA-ATT
*
3114113 ATTTAATAATAAAAATT-ATTTAAATT
1 -TTTAA-AAT-AATATTAATTTAAATT
*
3114139 TAATTATAA-AATATTAATTTAAATT
1 T--TTAAAATAATATTAATTTAAATT
3114164 TTTAAAATAATA
1 TTTAAAATAATA
3114176 AAAATTAAAC
Statistics
Matches: 50, Mismatches: 5, Indels: 16
0.70 0.07 0.23
Matches are distributed among these distances:
23 5 0.10
24 9 0.18
25 11 0.22
26 10 0.20
27 7 0.14
28 6 0.12
29 2 0.04
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (24 bp):
TTTAAAATAATATTAATTTAAATT
Found at i:3114189 original size:29 final size:25
Alignment explanation
Indices: 3114121--3114207 Score: 70
Period size: 29 Copynumber: 3.4 Consensus size: 25
3114111 TTATTTAATA
* * *
3114121 ATAAAAATT-ATTTAAATT-TAATT
1 ATAAAAATTAACTTAAATTAAAAAT
* *
3114144 ATAAAATATTAATTTAAATTTTTAAAAT
1 ATAAAA-ATTAACTTAAA--TTAAAAAT
3114172 AATAAAAATTAAACTTAAATTAAAAAT
1 -ATAAAAATT-AACTTAAATTAAAAAT
3114199 ATAAAAATT
1 ATAAAAATT
3114208 TCGTTTGTAA
Statistics
Matches: 53, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
23 6 0.11
24 3 0.06
25 7 0.13
26 9 0.17
27 9 0.17
28 6 0.11
29 13 0.25
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (25 bp):
ATAAAAATTAACTTAAATTAAAAAT
Found at i:3114423 original size:22 final size:21
Alignment explanation
Indices: 3114385--3114444 Score: 65
Period size: 22 Copynumber: 3.0 Consensus size: 21
3114375 TAAATATGCA
3114385 ATTATATT-TTTATTTTAATTAT
1 ATTATATTATTTA-TTTAATT-T
3114407 ATTATATTATTTATTT-ATTT
1 ATTATATTATTTATTTAATTT
*
3114427 ATT-TATTA-ATATTTAATT
1 ATTATATTATTTATTTAATT
3114445 CAAAATATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
18 5 0.14
19 8 0.23
20 4 0.11
21 3 0.09
22 11 0.31
23 4 0.11
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
ATTATATTATTTATTTAATTT
Found at i:3115676 original size:32 final size:33
Alignment explanation
Indices: 3115621--3115692 Score: 103
Period size: 32 Copynumber: 2.2 Consensus size: 33
3115611 TAAAATAAAA
* *
3115621 TATAATATAATAAATATTAAATATTTTAAAATT
1 TATAAAATAATAAATATTAAATATATTAAAATT
3115654 TATAAAAT-ATAAATTATT-AATATATTAAAATT
1 TATAAAATAATAAA-TATTAAATATATTAAAATT
3115686 TATAAAA
1 TATAAAA
3115693 ATTATATATT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
32 25 0.69
33 11 0.31
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (33 bp):
TATAAAATAATAAATATTAAATATATTAAAATT
Found at i:3115692 original size:41 final size:40
Alignment explanation
Indices: 3115615--3115698 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
3115605 TTTAATTAAA
*
3115615 ATAAAATATAATATAATAAATATTAAATATTTTAAAATTT
1 ATAAAATATAATATAATAAATATTAAATATTTTAAAAATT
*
3115655 ATAAAATATAA-ATTATTAATATATTAAA-ATTTATAAAAATT
1 ATAAAATATAATA-TAATAA-ATATTAAATATTT-TAAAAATT
3115696 ATA
1 ATA
3115699 TATTATTTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
39 1 0.03
40 20 0.51
41 18 0.46
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (40 bp):
ATAAAATATAATATAATAAATATTAAATATTTTAAAAATT
Found at i:3115697 original size:27 final size:28
Alignment explanation
Indices: 3115640--3115717 Score: 75
Period size: 32 Copynumber: 2.6 Consensus size: 28
3115630 ATAAATATTA
* *
3115640 AATATTTTAAAATTTATAAAATATAAATTATT
1 AATATATTAAAATTTATAAAA-AT-TA-TA-T
3115672 AATATATTAAAATTTATAAAAATTATAT
1 AATATATTAAAATTTATAAAAATTATAT
* * *
3115700 ATTATTTTAAATTTTATA
1 AATATATTAAAATTTATA
3115718 TTAATTAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
28 16 0.39
29 2 0.05
30 1 0.02
31 2 0.05
32 20 0.49
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (28 bp):
AATATATTAAAATTTATAAAAATTATAT
Found at i:3115723 original size:28 final size:27
Alignment explanation
Indices: 3115660--3115724 Score: 76
Period size: 28 Copynumber: 2.4 Consensus size: 27
3115650 AATTTATAAA
3115660 ATATAAATTATTAATATATTAAAATTT
1 ATATAAATTATTAATATATTAAAATTT
* * * *
3115687 ATAAAAATTATATATTATTTTAAATTTT
1 ATATAAATTAT-TAATATATTAAAATTT
*
3115715 ATATTAATTA
1 ATATAAATTA
3115725 AAAAAAATAC
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
27 10 0.32
28 21 0.68
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (27 bp):
ATATAAATTATTAATATATTAAAATTT
Found at i:3116114 original size:19 final size:18
Alignment explanation
Indices: 3116087--3116152 Score: 62
Period size: 19 Copynumber: 3.4 Consensus size: 18
3116077 ATCTAATCAT
*
3116087 TTATATATTTAAATTTTGA
1 TTATTTATTTAAATTTT-A
3116106 TTATTTATTTAATTATTTTA
1 TTATTTATTTAA--ATTTTA
*
3116126 TAATTATATTTAAATTATT-
1 TTATT-TATTTAAATT-TTA
3116145 TTATTTAT
1 TTATTTAT
3116153 ATAGAATTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
18 3 0.08
19 18 0.45
20 7 0.17
21 12 0.30
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.64
Consensus pattern (18 bp):
TTATTTATTTAAATTTTA
Found at i:3116131 original size:11 final size:11
Alignment explanation
Indices: 3116105--3116148 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
3116095 TTAAATTTTG
*
3116105 ATTATTTATTTA
1 ATTATTT-TATA
3116117 ATTATTTTATA
1 ATTATTTTATA
3116128 ATTATATTTA-A
1 ATTAT-TTTATA
3116139 ATTATTTTAT
1 ATTATTTTAT
3116149 TTATATAGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
10 4 0.14
11 14 0.48
12 11 0.38
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
ATTATTTTATA
Found at i:3116217 original size:33 final size:33
Alignment explanation
Indices: 3116144--3116227 Score: 95
Period size: 32 Copynumber: 2.6 Consensus size: 33
3116134 TTTAAATTAT
*
3116144 TTTAT-TTATATAGAA-TTTAATATATTAATAA
1 TTTATATTATATAAAATTTTAATATATTAATAA
* *
3116175 TTTAAATTATATAAAATTTTAA-ATATTTATATA
1 TTTATATTATATAAAATTTTAATATATTAATA-A
*
3116208 TTTATATTATAT-TAATTTTA
1 TTTATATTATATAAAATTTTA
3116228 TTTTGTATTA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
31 4 0.09
32 24 0.53
33 17 0.38
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (33 bp):
TTTATATTATATAAAATTTTAATATATTAATAA
Found at i:3116220 original size:11 final size:11
Alignment explanation
Indices: 3116204--3116255 Score: 54
Period size: 11 Copynumber: 4.8 Consensus size: 11
3116194 TAAATATTTA
3116204 TATATTTATAT
1 TATATTTATAT
* *
3116215 TATATTAATTT
1 TATATTTATAT
*
3116226 TAT-TTTGTAT
1 TATATTTATAT
3116236 TATATTTTATAT
1 TATA-TTTATAT
3116248 T-TATTTAT
1 TATATTTAT
3116256 GTATGTTTAA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
10 12 0.36
11 14 0.42
12 7 0.21
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (11 bp):
TATATTTATAT
Found at i:3116227 original size:16 final size:16
Alignment explanation
Indices: 3116164--3116252 Score: 58
Period size: 16 Copynumber: 5.4 Consensus size: 16
3116154 TAGAATTTAA
*
3116164 TATATTAATAATTTAAAT
1 TATATTAAT--TTTATAT
* *
3116182 TATATAAAATTTTA-AA
1 TATAT-TAATTTTATAT
3116198 TAT-TTATATATTTATAT
1 TATATTA-AT-TTTATAT
*
3116215 TATATTAATTTTATTT
1 TATATTAATTTTATAT
*
3116231 TGTATTATATTTTATAT
1 TATATTA-ATTTTATAT
3116248 T-TATT
1 TATATT
3116253 TATGTATGTT
Statistics
Matches: 58, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
14 1 0.02
15 3 0.05
16 24 0.41
17 19 0.33
18 8 0.14
19 3 0.05
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (16 bp):
TATATTAATTTTATAT
Found at i:3116229 original size:28 final size:28
Alignment explanation
Indices: 3116198--3116253 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
3116188 AAATTTTAAA
3116198 TATTTATATATT-TATATTATATTAATTT
1 TATTT-TATATTATATATTATATTAATTT
* * *
3116226 TATTTTGTATTATATTTTATATTTATTT
1 TATTTTATATTATATATTATATTAATTT
3116254 ATGTATGTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 5 0.21
28 19 0.79
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (28 bp):
TATTTTATATTATATATTATATTAATTT
Found at i:3116237 original size:21 final size:24
Alignment explanation
Indices: 3116212--3116259 Score: 66
Period size: 21 Copynumber: 2.1 Consensus size: 24
3116202 TATATATTTA
3116212 TATTATA-TTAAT-TTTATTT-TG
1 TATTATATTTAATATTTATTTATG
*
3116233 TATTATATTTTATATTTATTTATG
1 TATTATATTTAATATTTATTTATG
3116257 TAT
1 TAT
3116260 GTTTAATAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 7 0.30
22 4 0.17
23 7 0.30
24 5 0.22
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (24 bp):
TATTATATTTAATATTTATTTATG
Found at i:3116486 original size:17 final size:19
Alignment explanation
Indices: 3116464--3116506 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
3116454 AATTATAAAC
3116464 ATATTTTT-TATTA-AATT
1 ATATTTTTATATTATAATT
*
3116481 ATATTTTTATTTTATAATT
1 ATATTTTTATATTATAATT
3116500 AT-TTTTT
1 ATATTTTT
3116507 GAATAACTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 8 0.35
18 9 0.39
19 6 0.26
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
ATATTTTTATATTATAATT
Found at i:3117025 original size:24 final size:23
Alignment explanation
Indices: 3116998--3117067 Score: 72
Period size: 24 Copynumber: 3.0 Consensus size: 23
3116988 AATTAAATAT
*
3116998 AATAATGTAATTAAATTTTTATTA
1 AATAA-GTAATTTAATTTTTATTA
*
3117022 AATAAATAATTTTAA--TTTATTA
1 AATAAGTAA-TTTAATTTTTATTA
3117044 AATTTAAGTAATTTAATTTTTATT
1 AA--TAAGTAATTTAATTTTTATT
3117068 TCGAATTAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
22 9 0.24
23 8 0.21
24 15 0.39
25 6 0.16
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (23 bp):
AATAAGTAATTTAATTTTTATTA
Found at i:3119279 original size:12 final size:12
Alignment explanation
Indices: 3119241--3119284 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
3119231 ATTATATATA
3119241 TTATATTATTTT
1 TTATATTATTTT
*
3119253 TT-TATT-TTTAA
1 TTATATTATTT-T
3119264 TTATATTATTTT
1 TTATATTATTTT
3119276 TTATATTAT
1 TTATATTAT
3119285 ATTTAAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
10 3 0.11
11 6 0.22
12 15 0.56
13 3 0.11
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (12 bp):
TTATATTATTTT
Found at i:3122331 original size:4 final size:4
Alignment explanation
Indices: 3122317--3122357 Score: 73
Period size: 4 Copynumber: 10.0 Consensus size: 4
3122307 ACCGTTACCT
3122317 TTTA TTTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
3122358 CTTCTTAGGC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 32 0.89
5 4 0.11
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:3122472 original size:6 final size:6
Alignment explanation
Indices: 3122448--3122524 Score: 54
Period size: 6 Copynumber: 13.2 Consensus size: 6
3122438 ATATTATAAA
* * * *
3122448 ATATTT -TAATT AT-TTT ATATTT ATATTT ATATTT AAAATT ATA-AT
1 ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT
* *
3122493 AAATTT AATAATTT ATA-TT AAATTT ATATTT A
1 ATATTT -AT-ATTT ATATTT ATATTT ATATTT A
3122525 CATTACTATG
Statistics
Matches: 54, Mismatches: 11, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
5 15 0.28
6 32 0.59
7 3 0.06
8 4 0.07
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (6 bp):
ATATTT
Found at i:3122514 original size:19 final size:18
Alignment explanation
Indices: 3122466--3122518 Score: 63
Period size: 19 Copynumber: 2.9 Consensus size: 18
3122456 ATTATTTTAT
*
3122466 ATTTATATTTATATTTAAA
1 ATTTATA-TTAAATTTAAA
*
3122485 A-TTATAATAAATTTAATA
1 ATTTATATTAAATTTAA-A
3122503 ATTTATATTAAATTTA
1 ATTTATATTAAATTTA
3122519 TATTTACATT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 8 0.28
18 7 0.24
19 14 0.48
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTTATATTAAATTTAAA
Found at i:3122650 original size:22 final size:22
Alignment explanation
Indices: 3122625--3122668 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
3122615 TAAAAAAAAT
3122625 TAAAATTAACA-TTATTATTTAA
1 TAAAATTAACATTTA-TATTTAA
*
3122647 TAAAATTAATATTTATATTTAA
1 TAAAATTAACATTTATATTTAA
3122669 AGTTAATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 17 0.85
23 3 0.15
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (22 bp):
TAAAATTAACATTTATATTTAA
Found at i:3122739 original size:22 final size:21
Alignment explanation
Indices: 3122714--3122757 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 21
3122704 TATAATATTT
3122714 TAAAATATTATAAATAA-TAAAA
1 TAAAATATT-TAAA-AATTAAAA
3122736 TAAAATATTTAAAAATTAAAA
1 TAAAATATTTAAAAATTAAAA
3122757 T
1 T
3122758 TTTTTTCTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 2 0.10
21 10 0.48
22 9 0.43
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (21 bp):
TAAAATATTTAAAAATTAAAA
Found at i:3122743 original size:32 final size:30
Alignment explanation
Indices: 3122695--3122757 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 30
3122685 ATATAAATAT
*
3122695 TAATATAAATATAATATTTTAAAATATTATAAA
1 TAATATAAATAAAATA-TTTAAAA-ATTA-AAA
3122728 TAATA-AAATAAAATATTTAAAAATTAAAA
1 TAATATAAATAAAATATTTAAAAATTAAAA
3122757 T
1 T
3122758 TTTTTTCTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 4 0.14
30 4 0.14
31 7 0.24
32 9 0.31
33 5 0.17
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (30 bp):
TAATATAAATAAAATATTTAAAAATTAAAA
Found at i:3126215 original size:13 final size:13
Alignment explanation
Indices: 3126197--3126230 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
3126187 AATTTGAGTT
3126197 AATAATAAATATA
1 AATAATAAATATA
3126210 AATAATAAATATA
1 AATAATAAATATA
3126223 AATAATAA
1 AATAATAA
3126231 TAAAAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
AATAATAAATATA
Found at i:3126217 original size:7 final size:7
Alignment explanation
Indices: 3126197--3126230 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
3126187 AATTTGAGTT
3126197 AATAATA
1 AATAATA
3126204 AAT-ATA
1 AATAATA
3126210 AATAATA
1 AATAATA
3126217 AAT-ATA
1 AATAATA
3126223 AATAATA
1 AATAATA
3126230 A
1 A
3126231 TAAAAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 12 0.48
7 13 0.52
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
AATAATA
Found at i:3127100 original size:21 final size:20
Alignment explanation
Indices: 3127076--3127169 Score: 61
Period size: 21 Copynumber: 4.5 Consensus size: 20
3127066 GATTTAATCA
*
3127076 TTTATATTATATTTTTATATT
1 TTTATA-TATATTATTATATT
*
3127097 TTTATATATTATAATTATATT
1 TTTATATA-TATTATTATATT
**
3127118 TAAAATATTATATT-TTATATAAAT
1 T-TTATA-TATATTATTATAT---T
3127142 TTTA-ATATATTATTA-ATT
1 TTTATATATATTATTATATT
3127160 TTTAT-TATAT
1 TTTATATATAT
3127170 AAATTTTGAT
Statistics
Matches: 58, Mismatches: 7, Indels: 19
0.69 0.08 0.23
Matches are distributed among these distances:
18 10 0.17
20 2 0.03
21 31 0.53
22 10 0.17
23 3 0.05
24 2 0.03
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTATATATATTATTATATT
Found at i:3127176 original size:15 final size:15
Alignment explanation
Indices: 3127132--3127176 Score: 54
Period size: 17 Copynumber: 2.9 Consensus size: 15
3127122 ATATTATATT
3127132 TTATATAAATTTTAA
1 TTATATAAATTTTAA
* *
3127147 TATATTATTAATTTTTA
1 T-TA-TATAAATTTTAA
3127164 TTATATAAATTTT
1 TTATATAAATTTT
3127177 GATAAATTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
15 10 0.40
16 4 0.16
17 11 0.44
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TTATATAAATTTTAA
Found at i:3128390 original size:3 final size:3
Alignment explanation
Indices: 3128382--3128418 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
3128372 CTTTGAAACT
3128382 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
3128419 TTTTTTAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:3128720 original size:15 final size:16
Alignment explanation
Indices: 3128685--3128721 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
3128675 TATTTAATAT
*
3128685 ATAATTTATTAATTAC
1 ATAATTTATAAATTAC
3128701 A-AATTTATAAATTA-
1 ATAATTTATAAATTAC
3128715 ATAATTT
1 ATAATTT
3128722 TTATATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 1 0.05
15 17 0.89
16 1 0.05
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (16 bp):
ATAATTTATAAATTAC
Found at i:3134643 original size:31 final size:31
Alignment explanation
Indices: 3134606--3134667 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
3134596 TTAAACTTTA
3134606 AACTAACATATTTAAATGCTGATATATCAAT
1 AACTAACATATTTAAATGCTGATATATCAAT
3134637 AACTAACATATTTAAATGCTGATATATCAAT
1 AACTAACATATTTAAATGCTGATATATCAAT
3134668 GATATCATGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.45, C:0.13, G:0.06, T:0.35
Consensus pattern (31 bp):
AACTAACATATTTAAATGCTGATATATCAAT
Found at i:3139412 original size:5 final size:5
Alignment explanation
Indices: 3139398--3139462 Score: 73
Period size: 5 Copynumber: 13.0 Consensus size: 5
3139388 ATTTTTATTA
*
3139398 AATTT GATTT AATTT --TTT ATATTT AATAATT AATTT AATTT AATTT
1 AATTT AATTT AATTT AATTT A-ATTT AAT--TT AATTT AATTT AATTT
3139444 AA-TT AATTT AATTT AATTT
1 AATTT AATTT AATTT AATTT
3139463 TTATTTATAA
Statistics
Matches: 52, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
3 3 0.06
4 4 0.08
5 36 0.69
6 4 0.08
7 5 0.10
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (5 bp):
AATTT
Found at i:3139441 original size:14 final size:14
Alignment explanation
Indices: 3139404--3139461 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
3139394 ATTAAATTTG
*
3139404 ATTTAATTT-TTTA
1 ATTTAATTTAATTA
3139417 TATTTAATAATTAATTTA
1 -ATTTAAT--TTAA-TTA
3139435 ATTTAATTTAATTA
1 ATTTAATTTAATTA
3139449 ATTTAATTTAATT
1 ATTTAATTTAATT
3139462 TTTATTTATA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
14 23 0.59
15 4 0.10
16 2 0.05
17 7 0.18
18 3 0.08
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
ATTTAATTTAATTA
Found at i:3139448 original size:19 final size:19
Alignment explanation
Indices: 3139398--3139462 Score: 82
Period size: 19 Copynumber: 3.5 Consensus size: 19
3139388 ATTTTTATTA
* *
3139398 AATTTGATTTAATT-TTTT
1 AATTTAATTTAATTAATTT
3139416 ATATTTAA--TAATTAATTT
1 A-ATTTAATTTAATTAATTT
3139434 AATTTAATTTAATTAATTT
1 AATTTAATTTAATTAATTT
3139453 AATTTAATTT
1 AATTTAATTT
3139463 TTATTTATAA
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
17 11 0.27
18 5 0.12
19 25 0.61
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (19 bp):
AATTTAATTTAATTAATTT
Found at i:3139503 original size:21 final size:21
Alignment explanation
Indices: 3139479--3139523 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
3139469 ATAAATTAAA
*
3139479 AATTTATAA-CTATTTTTATTT
1 AATTTA-AATCTATTTTTAATT
*
3139500 AATTTAAATTTATTTTTAATT
1 AATTTAAATCTATTTTTAATT
3139521 AAT
1 AAT
3139524 ATAATAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (21 bp):
AATTTAAATCTATTTTTAATT
Found at i:3139545 original size:52 final size:52
Alignment explanation
Indices: 3139441--3139549 Score: 134
Period size: 52 Copynumber: 2.1 Consensus size: 52
3139431 TTTAATTTAA
* * *
3139441 TTTAATTAATTTAATTTAATTTTTATTTATAAATTAAAAATTTATAACTATT
1 TTTAATTAATTTAATTTAATTTTTATTAATAAATAAAAAATATATAACTATT
*
3139493 TTTATTTAATTTAAATTT-ATTTTTAATTAATATAATAAAAAATATAT-A-TATT
1 TTTAATTAATTT-AATTTAATTTTT-ATTAATA-AATAAAAAATATATAACTATT
3139545 TTTAA
1 TTTAA
3139550 ATCAATAAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
52 25 0.51
53 12 0.24
54 12 0.24
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (52 bp):
TTTAATTAATTTAATTTAATTTTTATTAATAAATAAAAAATATATAACTATT
Found at i:3140274 original size:33 final size:33
Alignment explanation
Indices: 3140237--3140346 Score: 99
Period size: 33 Copynumber: 3.5 Consensus size: 33
3140227 AATAGTTATC
*
3140237 AAATTTATAAGTAATTATATCTAATATTTATTA
1 AAATTTATAAATAATTATATCTAATATTTATTA
*
3140270 AAA-TTATAAAAAAATT-T-TGCTCAATATTTATT-
1 AAATTTAT-AAATAATTATAT-CT-AATATTTATTA
* *
3140302 AAATTTATGAATAATTATAT-TTA-ATTT-TTA
1 AAATTTATAAATAATTATATCTAATATTTATTA
*
3140332 AAATTTATAATTAAT
1 AAATTTATAAATAAT
3140347 ATCAATTTAA
Statistics
Matches: 63, Mismatches: 7, Indels: 17
0.72 0.08 0.20
Matches are distributed among these distances:
29 2 0.03
30 17 0.27
31 2 0.03
32 17 0.27
33 24 0.38
34 1 0.02
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (33 bp):
AAATTTATAAATAATTATATCTAATATTTATTA
Found at i:3140277 original size:32 final size:32
Alignment explanation
Indices: 3140226--3140346 Score: 90
Period size: 32 Copynumber: 3.8 Consensus size: 32
3140216 TGAAATTTTT
* * * *
3140226 TAATAGTTATCAAATTTATAAGTAATTATATC
1 TAATATTTATTAAAATTATAAATAATTATATC
*
3140258 TAATATTTATTAAAATTATAAAAAAATT-T-TGC
1 TAATATTTATTAAAATTAT-AAATAATTATAT-C
* *
3140290 TCAATATTTATTAAATTTATGAATAATTATAT-
1 T-AATATTTATTAAAATTATAAATAATTATATC
* *
3140322 TTA-ATTT-TTAAAATTTATAATTAAT
1 TAATATTTATTAAAA-TTATAAATAAT
3140347 ATCAATTTAA
Statistics
Matches: 71, Mismatches: 12, Indels: 14
0.73 0.12 0.14
Matches are distributed among these distances:
29 5 0.07
30 13 0.18
31 2 0.03
32 26 0.37
33 24 0.34
34 1 0.01
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.48
Consensus pattern (32 bp):
TAATATTTATTAAAATTATAAATAATTATATC
Found at i:3140337 original size:30 final size:30
Alignment explanation
Indices: 3140302--3140361 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
3140292 AATATTTATT
3140302 AAATTTATGAA-TAAT-TATATTTAATTTTTA
1 AAATTTAT-AATTAATATA-ATTTAATTTTTA
3140332 AAATTTATAATTAATATCAATTTAATTTTT
1 AAATTTATAATTAATAT-AATTTAATTTTT
3140362 TTAGAAACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
29 2 0.07
30 12 0.44
31 12 0.44
32 1 0.04
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (30 bp):
AAATTTATAATTAATATAATTTAATTTTTA
Found at i:3141886 original size:14 final size:14
Alignment explanation
Indices: 3141869--3141924 Score: 53
Period size: 14 Copynumber: 4.1 Consensus size: 14
3141859 TATTATTGCT
3141869 AAAGTACCTGTGTC
1 AAAGTACCTGTGTC
* *
3141883 AAAGTATCT-TAT-
1 AAAGTACCTGTGTC
* *
3141895 AAAGTATCTGTGCC
1 AAAGTACCTGTGTC
*
3141909 AAAATACCTGTGTC
1 AAAGTACCTGTGTC
3141923 AA
1 AA
3141925 GTTCTTCGTC
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
12 9 0.27
13 3 0.09
14 21 0.64
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (14 bp):
AAAGTACCTGTGTC
Found at i:3142237 original size:13 final size:13
Alignment explanation
Indices: 3142219--3142311 Score: 66
Period size: 13 Copynumber: 7.2 Consensus size: 13
3142209 ATAATACTCT
3142219 TTGACACAGGTAC
1 TTGACACAGGTAC
*
3142232 TTGACA-AGATAC
1 TTGACACAGGTAC
**
3142244 TTGGTACAGGTAC
1 TTGACACAGGTAC
*
3142257 TTTGACACAAGTA-
1 -TTGACACAGGTAC
* *
3142270 TTTAGTACAGGTAC
1 TTGA-CACAGGTAC
*
3142284 TTGGCA-AGGTAC
1 TTGACACAGGTAC
*
3142296 TTTGACACAAGTAC
1 -TTGACACAGGTAC
3142310 TT
1 TT
3142312 AGCTCAGATA
Statistics
Matches: 59, Mismatches: 15, Indels: 12
0.69 0.17 0.14
Matches are distributed among these distances:
12 18 0.31
13 25 0.42
14 16 0.27
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (13 bp):
TTGACACAGGTAC
Found at i:3142294 original size:39 final size:39
Alignment explanation
Indices: 3142217--3142330 Score: 135
Period size: 39 Copynumber: 2.9 Consensus size: 39
3142207 CAATAATACT
* * *
3142217 CTTTGACACAGGTACTT-GAC-AAGATACTTGGTACAGGTA
1 CTTTGACACAAGTACTTAG-CTCAGATACTTGGCA-AGGTA
* *
3142256 CTTTGACACAAGTATTTAG-TACAGGTACTTGGCAAGGTA
1 CTTTGACACAAGTACTTAGCT-CAGATACTTGGCAAGGTA
3142295 CTTTGACACAAGTACTTAGCTCAGATACTTGGCAAG
1 CTTTGACACAAGTACTTAGCTCAGATACTTGGCAAG
3142331 ATGCTTGGTA
Statistics
Matches: 64, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
39 52 0.81
40 12 0.19
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (39 bp):
CTTTGACACAAGTACTTAGCTCAGATACTTGGCAAGGTA
Found at i:3142295 original size:12 final size:12
Alignment explanation
Indices: 3142278--3142387 Score: 58
Period size: 13 Copynumber: 8.7 Consensus size: 12
3142268 TATTTAGTAC
3142278 AGGTACTTGGCA
1 AGGTACTTGGCA
*
3142290 AGGTACTTTGACA
1 AGGTAC-TTGGCA
* * *
3142303 CAAGTACTTAGCTC
1 -AGGTACTTGGC-A
*
3142317 AGATACTTGGCA
1 AGGTACTTGGCA
* * *
3142329 AGATGCTTGGTA
1 AGGTACTTGGCA
*
3142341 AGGTATTTGGCA
1 AGGTACTTGGCA
*
3142353 CAGGTACTTTGCA
1 -AGGTACTTGGCA
* *
3142366 AGATACTTTGGTA
1 AGGTAC-TTGGCA
3142379 CAGGTACTT
1 -AGGTACTT
3142388 TGACAATAAT
Statistics
Matches: 71, Mismatches: 21, Indels: 11
0.69 0.20 0.11
Matches are distributed among these distances:
12 29 0.41
13 32 0.45
14 10 0.14
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.31
Consensus pattern (12 bp):
AGGTACTTGGCA
Found at i:3142382 original size:26 final size:26
Alignment explanation
Indices: 3142217--3142389 Score: 108
Period size: 26 Copynumber: 6.7 Consensus size: 26
3142207 CAATAATACT
*
3142217 CTTTGACACAGGTAC-TTGACAAGATA
1 CTTTGGCACAGGTACTTTG-CAAGATA
*
3142243 C-TTGGTACAGGTACTTTGACACA-AGTA
1 CTTTGGCACAGGTACTTTG-CA-AGA-TA
* * * *
3142270 -TTTAGTACAGGTACTTGGCAAGGTA
1 CTTTGGCACAGGTACTTTGCAAGATA
* * * *
3142295 CTTTGACACAAGTACTTAGCTCAGATA
1 CTTTGGCACAGGTACTTTGC-AAGATA
* * * * *
3142322 C-TTGGCA-AGATGCTTGGTAAGGTA
1 CTTTGGCACAGGTACTTTGCAAGATA
3142346 -TTTGGCACAGGTACTTTGCAAGATA
1 CTTTGGCACAGGTACTTTGCAAGATA
*
3142371 CTTTGGTACAGGTACTTTG
1 CTTTGGCACAGGTACTTTG
3142390 ACAATAATAT
Statistics
Matches: 111, Mismatches: 26, Indels: 20
0.71 0.17 0.13
Matches are distributed among these distances:
24 10 0.09
25 32 0.29
26 46 0.41
27 23 0.21
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (26 bp):
CTTTGGCACAGGTACTTTGCAAGATA
Found at i:3144450 original size:2 final size:2
Alignment explanation
Indices: 3144443--3144471 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
3144433 TTGGAATTAT
3144443 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3144472 TAATTTTTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3147259 original size:61 final size:61
Alignment explanation
Indices: 3147172--3147287 Score: 205
Period size: 61 Copynumber: 1.9 Consensus size: 61
3147162 GGATGCCAGT
* *
3147172 CGTGACCAACGTGATCGTAACCAACGAAGACGTTGGTCCTTCAAGTATGGAGTATGCCAAC
1 CGTGACCAACGTGATCGTAACCAACGAAGACGTTGATCCTTCAAGCATGGAGTATGCCAAC
*
3147233 CGTGACCAACGTGATCGTAATCAACGAAGACGTTGATCCTTCAAGCATGGAGTAT
1 CGTGACCAACGTGATCGTAACCAACGAAGACGTTGATCCTTCAAGCATGGAGTAT
3147288 TGATGTGATC
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 52 1.00
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.22
Consensus pattern (61 bp):
CGTGACCAACGTGATCGTAACCAACGAAGACGTTGATCCTTCAAGCATGGAGTATGCCAAC
Found at i:3149052 original size:15 final size:15
Alignment explanation
Indices: 3149028--3149058 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3149018 TTTAATTGCG
3149028 TATGCAATATGGGTA
1 TATGCAATATGGGTA
*
3149043 TATGCCATATGGGTA
1 TATGCAATATGGGTA
3149058 T
1 T
3149059 TAAGTTATGT
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:0.29, C:0.10, G:0.26, T:0.35
Consensus pattern (15 bp):
TATGCAATATGGGTA
Found at i:3150767 original size:26 final size:25
Alignment explanation
Indices: 3150718--3150775 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 25
3150708 TATAAAATAA
*
3150718 AATATATAAAATTTATTTATATATT
1 AATATATAAAATTTATTTAAATATT
3150743 AATATATTAAAATTT-TATTAAATA-T
1 AATATA-TAAAATTTAT-TTAAATATT
3150768 AAT-TATAA
1 AATATATAA
3150776 TAAATAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
23 3 0.10
24 2 0.07
25 11 0.37
26 14 0.47
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (25 bp):
AATATATAAAATTTATTTAAATATT
Found at i:3150779 original size:15 final size:15
Alignment explanation
Indices: 3150761--3150821 Score: 51
Period size: 14 Copynumber: 4.3 Consensus size: 15
3150751 AAAATTTTAT
3150761 TAAATATAATTATAA
1 TAAATATAATTATAA
* *
3150776 TAAATAAAAATAT-A
1 TAAATATAATTATAA
*
3150790 TTAATATAA-TATAA
1 TAAATATAATTATAA
3150804 -AAATAT--TTATAA
1 TAAATATAATTATAA
3150816 TTAAAT
1 -TAAAT
3150822 TTTAAATATA
Statistics
Matches: 37, Mismatches: 5, Indels: 9
0.73 0.10 0.18
Matches are distributed among these distances:
12 5 0.14
13 8 0.22
14 13 0.35
15 11 0.30
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
TAAATATAATTATAA
Found at i:3150786 original size:21 final size:20
Alignment explanation
Indices: 3150762--3150821 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 20
3150752 AAATTTTATT
3150762 AAATATAATTATAATAAATAA
1 AAATAT-ATTATAATAAATAA
3150783 AAATATATTA-ATATAATATAA
1 AAATATATTATA-ATAA-ATAA
3150804 AAATAT-TTATAATTAAAT
1 AAATATATTATAA-TAAAT
3150822 TTTAAATATA
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
19 1 0.03
20 14 0.40
21 20 0.57
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
AAATATATTATAATAAATAA
Found at i:3150800 original size:19 final size:18
Alignment explanation
Indices: 3150773--3150815 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
3150763 AATATAATTA
3150773 TAATAAATA-AAAATATAT
1 TAATAAATATAAAA-ATAT
3150791 TAATATAATATAAAAATAT
1 TAATA-AATATAAAAATAT
*
3150810 TTATAA
1 TAATAA
3150816 TTAAATTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 6 0.27
19 12 0.55
20 4 0.18
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
TAATAAATATAAAAATAT
Found at i:3150860 original size:27 final size:25
Alignment explanation
Indices: 3150816--3150886 Score: 70
Period size: 27 Copynumber: 2.7 Consensus size: 25
3150806 ATATTTATAA
* *
3150816 TTAAATTTTAAATATAAAATTATATTAT
1 TTAAA-TTTAAAAATAAAA--ATAATAT
3150844 TTAAATTTAAAAATAAAAATAATAT
1 TTAAATTTAAAAATAAAAATAATAT
* *
3150869 ATAAATATTTAAAATAAA
1 TTAAAT-TTAAAAATAAA
3150887 TAAATTTAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
25 11 0.29
26 10 0.26
27 12 0.32
28 5 0.13
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (25 bp):
TTAAATTTAAAAATAAAAATAATAT
Found at i:3150966 original size:2 final size:2
Alignment explanation
Indices: 3150959--3150996 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
3150949 TTATAAACAT
3150959 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3150997 AGACAAAAGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3151256 original size:35 final size:32
Alignment explanation
Indices: 3151190--3151257 Score: 82
Period size: 35 Copynumber: 2.0 Consensus size: 32
3151180 ATATATTTAT
* **
3151190 AAAAAATAATTAATTAATTTTTTAATTTAATA
1 AAAAAATAATTAAATAATTTTTTAAGATAATA
3151222 AAAATAATATATTAAATATATTTTTTAAGATAATA
1 AAAA-AATA-ATTAAATA-ATTTTTTAAGATAATA
3151257 A
1 A
3151258 TTAAATAACT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
32 4 0.13
33 4 0.13
34 7 0.23
35 15 0.50
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.44
Consensus pattern (32 bp):
AAAAAATAATTAAATAATTTTTTAAGATAATA
Found at i:3151420 original size:11 final size:11
Alignment explanation
Indices: 3151401--3151433 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
3151391 TCATTATTTT
3151401 TTATAAAAATA
1 TTATAAAAATA
3151412 GTT-TAAAAATA
1 -TTATAAAAATA
3151423 TTATAAAAATA
1 TTATAAAAATA
3151434 ATTTTTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 2 0.10
11 16 0.80
12 2 0.10
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (11 bp):
TTATAAAAATA
Found at i:3152421 original size:20 final size:20
Alignment explanation
Indices: 3152396--3152437 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
3152386 TTTCTATATA
3152396 TTTTTTATTCTACTTTTTCT
1 TTTTTTATTCTACTTTTTCT
* **
3152416 TTTTTTTTTCTTTTTTTTCT
1 TTTTTTATTCTACTTTTTCT
3152436 TT
1 TT
3152438 AACCAATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.83
Consensus pattern (20 bp):
TTTTTTATTCTACTTTTTCT
Found at i:3152423 original size:11 final size:11
Alignment explanation
Indices: 3152409--3152433 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
3152399 TTTATTCTAC
3152409 TTTTTCTTTTT
1 TTTTTCTTTTT
3152420 TTTTTCTTTTT
1 TTTTTCTTTTT
3152431 TTT
1 TTT
3152434 CTTTAACCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:3152489 original size:23 final size:23
Alignment explanation
Indices: 3152462--3152511 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
3152452 ACACTAAATT
* *
3152462 TTTAAATAATAATAATTAATTAA
1 TTTAAATAAAAATAATTAATAAA
*
3152485 TTTAAATAAAAATATTTAATAAA
1 TTTAAATAAAAATAATTAATAAA
3152508 TTTA
1 TTTA
3152512 TTTCAAAGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
TTTAAATAAAAATAATTAATAAA
Found at i:3153397 original size:2 final size:2
Alignment explanation
Indices: 3153390--3153416 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3153380 CTTATTAATC
3153390 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
3153417 CACAAAATCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3154384 original size:8 final size:8
Alignment explanation
Indices: 3154371--3154463 Score: 68
Period size: 8 Copynumber: 11.4 Consensus size: 8
3154361 TAAAGTGTTA
3154371 TTATATAT
1 TTATATAT
3154379 TTATATAAATT
1 TTATAT--A-T
3154390 TTAATATAT
1 TT-ATATAT
*
3154399 TAATAT-T
1 TTATATAT
3154406 TTATATTAT
1 TTATA-TAT
*
3154415 TTAAATAT
1 TTATATAT
*
3154423 TTATATAA
1 TTATATAT
*
3154431 TTATATAA
1 TTATATAT
3154439 TTATATTAT
1 TTATA-TAT
3154448 TT-TATA-
1 TTATATAT
3154454 TTATAT-T
1 TTATATAT
3154461 TTA
1 TTA
3154464 ATTATTTTTA
Statistics
Matches: 70, Mismatches: 6, Indels: 19
0.74 0.06 0.20
Matches are distributed among these distances:
6 2 0.03
7 13 0.19
8 35 0.50
9 11 0.16
10 2 0.03
11 3 0.04
12 4 0.06
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (8 bp):
TTATATAT
Found at i:3154415 original size:43 final size:42
Alignment explanation
Indices: 3154368--3154457 Score: 112
Period size: 43 Copynumber: 2.1 Consensus size: 42
3154358 ATTTAAAGTG
*
3154368 TTATTATATATTTATATAAATT-T-TAATATATTAATATTTTATA
1 TTATTAAATATTTATAT-AATTATATAAT-TA-TAATATTTTATA
*
3154411 TTATTTAAATATTTATATAATTATATAATTATATTATTTTATA
1 TTA-TTAAATATTTATATAATTATATAATTATAATATTTTATA
3154454 TTAT
1 TTAT
3154458 ATTTTAATTA
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
42 1 0.02
43 21 0.50
44 16 0.38
45 4 0.10
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (42 bp):
TTATTAAATATTTATATAATTATATAATTATAATATTTTATA
Found at i:3155672 original size:11 final size:11
Alignment explanation
Indices: 3155642--3155681 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
3155632 ATGAACTTAT
3155642 AAAATAATAT-
1 AAAATAATATA
3155652 -AAAT-ATATA
1 AAAATAATATA
3155661 AAAATAATATA
1 AAAATAATATA
*
3155672 AATATAATAT
1 AAAATAATAT
3155682 TATAATATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
8 4 0.15
9 4 0.15
10 4 0.15
11 14 0.54
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
AAAATAATATA
Found at i:3155693 original size:2 final size:2
Alignment explanation
Indices: 3155648--3155704 Score: 50
Period size: 2 Copynumber: 30.5 Consensus size: 2
3155638 TTATAAAATA
* * * *
3155648 AT AT AA AT AT AT AA AA AT A- AT AT AA AT AT A- AT AT -T AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3155686 AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
3155705 CACATGATAA
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
1 4 0.09
2 41 0.91
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (2 bp):
AT
Found at i:3155704 original size:19 final size:19
Alignment explanation
Indices: 3155645--3155704 Score: 77
Period size: 19 Copynumber: 3.2 Consensus size: 19
3155635 AACTTATAAA
* *
3155645 ATAATATAAATATATAAAA
1 ATAATATAAATATATATAT
3155664 ATAATATAAATATA-ATATT
1 ATAATATAAATATATATA-T
*
3155683 ATAATATATATATATATAT
1 ATAATATAAATATATATAT
3155702 ATA
1 ATA
3155705 CACATGATAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
18 2 0.06
19 31 0.86
20 3 0.08
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
ATAATATAAATATATATAT
Found at i:3156742 original size:2 final size:2
Alignment explanation
Indices: 3156735--3156785 Score: 57
Period size: 2 Copynumber: 25.5 Consensus size: 2
3156725 ATTGCTTTTA
* * * *
3156735 AT AT AT AT AT AT AT GT GT GT GT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
3156777 TT AT AT AT A
1 AT AT AT AT A
3156786 ACAATTCTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (2 bp):
AT
Found at i:3159373 original size:2 final size:2
Alignment explanation
Indices: 3159366--3159397 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
3159356 CCCAACATAG
3159366 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3159398 TCATTCTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3160912 original size:12 final size:11
Alignment explanation
Indices: 3160886--3160924 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
3160876 TTTAAAAAAT
*
3160886 TATATTATTATA
1 TATA-TATTAAA
3160898 TATATATTTAAA
1 TATATA-TTAAA
3160910 TATATATTAAA
1 TATATATTAAA
3160921 TATA
1 TATA
3160925 CACATTAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
11 11 0.44
12 14 0.56
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (11 bp):
TATATATTAAA
Found at i:3161324 original size:35 final size:31
Alignment explanation
Indices: 3161285--3161347 Score: 72
Period size: 35 Copynumber: 1.9 Consensus size: 31
3161275 TATATAAAAT
*
3161285 AATTACGTCATATCAATATATATTATTTTTAATTA
1 AATTACATCATAT-AAT-TA-A-TATTTTTAATTA
*
3161320 AATTATATCATATAATTAATATTTTTAA
1 AATTACATCATATAATTAATATTTTTAA
3161348 AAAAAATCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
31 9 0.35
32 1 0.04
33 2 0.08
34 3 0.12
35 11 0.42
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.49
Consensus pattern (31 bp):
AATTACATCATATAATTAATATTTTTAATTA
Found at i:3161395 original size:29 final size:28
Alignment explanation
Indices: 3161311--3161419 Score: 87
Period size: 29 Copynumber: 3.7 Consensus size: 28
3161301 TATATATTAT
3161311 TTTTAATTAAATTATATCATATAATTAATAT-
1 TTTTAA-T-AATTA-ATCA-ATAATTAATATA
** *
3161342 TTTTAA-AAAAAATCAATCATTAATATA
1 TTTTAATAATTAATCAATAATTAATATA
*
3161369 TTTTATATAATTAATGAATAATTAATATAAA
1 TTTTA-ATAATTAATCAATAATTAATAT--A
* *
3161400 TTTTAATAATTTATTAATAA
1 TTTTAATAATTAATCAATAA
3161420 CTTTTATAAT
Statistics
Matches: 64, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
26 10 0.16
27 9 0.14
28 4 0.06
29 16 0.25
30 13 0.20
31 12 0.19
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.47
Consensus pattern (28 bp):
TTTTAATAATTAATCAATAATTAATATA
Found at i:3161428 original size:30 final size:31
Alignment explanation
Indices: 3161360--3161419 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
3161350 AAAATCAATC
3161360 ATTAATAT--ATTTTATATAATTAATGAATA
1 ATTAATATAAATTTTATATAATTAATGAATA
* *
3161389 ATTAATATAAATTTTA-ATAATTTATTAATA
1 ATTAATATAAATTTTATATAATTAATGAATA
3161419 A
1 A
3161420 CTTTTATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 8 0.30
30 13 0.48
31 6 0.22
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (31 bp):
ATTAATATAAATTTTATATAATTAATGAATA
Found at i:3161478 original size:20 final size:19
Alignment explanation
Indices: 3161416--3161478 Score: 56
Period size: 20 Copynumber: 3.2 Consensus size: 19
3161406 TAATTTATTA
*
3161416 ATAACTTTTATAATAAAAAAT
1 ATAA-TTTTATAA-AAATAAT
* *
3161437 -TAATTTTTTAAAAACTATT
1 ATAATTTTATAAAAA-TAAT
3161456 ATAATTTTAATAAAAATAAT
1 ATAATTTT-ATAAAAATAAT
3161476 ATA
1 ATA
3161479 TACATATAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
18 3 0.09
19 9 0.26
20 16 0.47
21 6 0.18
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (19 bp):
ATAATTTTATAAAAATAAT
Found at i:3162003 original size:17 final size:17
Alignment explanation
Indices: 3161971--3162019 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
3161961 TAATTTCGAT
*
3161971 AATTATTTTT-ATTTAA
1 AATTATTTTTAAATTAA
*
3161987 ATTTATTTTTAAATTAA
1 AATTATTTTTAAATTAA
* *
3162004 AATTATGTATAAATTA
1 AATTATTTTTAAATTA
3162020 TTATATTTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
16 9 0.33
17 18 0.67
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (17 bp):
AATTATTTTTAAATTAA
Found at i:3162300 original size:23 final size:23
Alignment explanation
Indices: 3162274--3162327 Score: 67
Period size: 22 Copynumber: 2.3 Consensus size: 23
3162264 AGATAGAGGA
3162274 TTTTATAAATTAAATGTAATAT-T
1 TTTTATAAATTAAAT-TAATATAT
*
3162297 TTTT-TAAATTTAATTAATATAT
1 TTTTATAAATTAAATTAATATAT
3162319 TATTTATAA
1 T-TTTATAA
3162328 TAATAATAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 6 0.22
22 11 0.41
23 7 0.26
24 3 0.11
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (23 bp):
TTTTATAAATTAAATTAATATAT
Found at i:3162419 original size:13 final size:14
Alignment explanation
Indices: 3162376--3162420 Score: 56
Period size: 15 Copynumber: 3.2 Consensus size: 14
3162366 TTTATTATTT
3162376 TAATATATTTTAAA
1 TAATATATTTTAAA
* *
3162390 AAATATCATTATAAA
1 TAATAT-ATTTTAAA
3162405 TAATA-ATTTTAAA
1 TAATATATTTTAAA
3162418 TAA
1 TAA
3162421 CAACTCTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
13 10 0.38
14 5 0.19
15 11 0.42
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (14 bp):
TAATATATTTTAAA
Found at i:3164658 original size:17 final size:19
Alignment explanation
Indices: 3164629--3164668 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
3164619 TCAATTATTG
*
3164629 TTTATTATTTAAACTTG-A
1 TTTATTATTTAAAATTGAA
3164647 TTTATT-TTTAAAATTGAA
1 TTTATTATTTAAAATTGAA
3164665 TTTA
1 TTTA
3164669 AATATTATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (19 bp):
TTTATTATTTAAAATTGAA
Found at i:3165796 original size:12 final size:11
Alignment explanation
Indices: 3165779--3165826 Score: 51
Period size: 12 Copynumber: 4.2 Consensus size: 11
3165769 TAAAGACTAA
3165779 TTAATATATTAT
1 TTAATATA-TAT
3165791 TTAATATATAT
1 TTAATATATAT
** *
3165802 CAAATATAATAA
1 TTAATAT-ATAT
3165814 TTAATATATAT
1 TTAATATATAT
3165825 TT
1 TT
3165827 TTAAAAATTT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
11 13 0.45
12 16 0.55
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (11 bp):
TTAATATATAT
Found at i:3165807 original size:23 final size:23
Alignment explanation
Indices: 3165781--3165824 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
3165771 AAGACTAATT
* *
3165781 AATATATTATTTAATATATATCA
1 AATATAATAATTAATATATATCA
3165804 AATATAATAATTAATATATAT
1 AATATAATAATTAATATATAT
3165825 TTTTAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (23 bp):
AATATAATAATTAATATATATCA
Found at i:3166456 original size:21 final size:21
Alignment explanation
Indices: 3166432--3166471 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
3166422 ATATAAGATA
3166432 TAAA-TAAATTAAAATTTTATT
1 TAAATTAAA-TAAAATTTTATT
*
3166453 TAAATTTAATAAAATTTTA
1 TAAATTAAATAAAATTTTA
3166472 AAAATTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
TAAATTAAATAAAATTTTATT
Found at i:3167065 original size:31 final size:29
Alignment explanation
Indices: 3167022--3167082 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 29
3167012 ATATAAATTT
3167022 AATTTGATTATTATA-AAGTTAAAATTTAAA
1 AATTTGATTATTA-AGAAGTT-AAATTTAAA
3167052 AATTTAGATTATTAAGTAAGTTAAATTTAAA
1 AATTT-GATTATTAAG-AAGTTAAATTTAAA
3167083 TATCATAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
30 6 0.21
31 17 0.61
32 5 0.18
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.43
Consensus pattern (29 bp):
AATTTGATTATTAAGAAGTTAAATTTAAA
Found at i:3167778 original size:2 final size:2
Alignment explanation
Indices: 3167771--3167801 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
3167761 TGCTTCTTTA
3167771 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
3167802 AAAACTTGCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:3168604 original size:2 final size:2
Alignment explanation
Indices: 3168597--3168625 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
3168587 ATCAAATTGT
3168597 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
3168626 TCAATTCTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:3181883 original size:62 final size:62
Alignment explanation
Indices: 3181812--3181930 Score: 213
Period size: 62 Copynumber: 1.9 Consensus size: 62
3181802 AAATTAAATA
3181812 TTATATTTAAATTTAATAATATTAAATATAATATAATT-TATGATATAAATATAATATAAAGT
1 TTATATTTAAATTTAATAATATTAAATATAATATAATTATATGA-ATAAATATAATATAAAGT
*
3181874 TTATATTTAAATTTGATAATATTAAATATAATATAATTATATGAATAAATATAATAT
1 TTATATTTAAATTTAATAATATTAAATATAATATAATTATATGAATAAATATAATAT
3181931 GATATAAATA
Statistics
Matches: 55, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
62 50 0.91
63 5 0.09
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.45
Consensus pattern (62 bp):
TTATATTTAAATTTAATAATATTAAATATAATATAATTATATGAATAAATATAATATAAAGT
Found at i:3181939 original size:16 final size:15
Alignment explanation
Indices: 3181912--3181942 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
3181902 TAATATAATT
3181912 ATATGAATAAATATA
1 ATATGAATAAATATA
3181927 ATATGATATAAATATA
1 ATATGA-ATAAATATA
3181943 TAAATATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.35
Consensus pattern (15 bp):
ATATGAATAAATATA
Found at i:3181947 original size:62 final size:62
Alignment explanation
Indices: 3181814--3181947 Score: 191
Period size: 62 Copynumber: 2.2 Consensus size: 62
3181804 ATTAAATATT
**
3181814 ATATTTAAATTTAATAATATTAAATATAATATAATTTATGATATAAATATAATATAAAGTTT
1 ATATTTAAATTTAATAATATTAAATATAATATAATTTATGATATAAATATAATATAAAGTAA
* *
3181876 ATATTTAAATTTGATAATATTAAATATAATATAATTATATGA-ATAAATATAATATGATA-TAA
1 ATATTTAAATTTAATAATATTAAATATAATATAATT-TATGATATAAATATAATAT-AAAGTAA
*
3181938 ATATATAAAT
1 ATATTTAAAT
3181948 ATTTATTTAA
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
62 58 0.89
63 7 0.11
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (62 bp):
ATATTTAAATTTAATAATATTAAATATAATATAATTTATGATATAAATATAATATAAAGTAA
Found at i:3183408 original size:12 final size:12
Alignment explanation
Indices: 3183387--3183425 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
3183377 AAAATTATAA
*
3183387 ATATTAAAATTT
1 ATATTTAAATTT
3183399 ATATTTAAATTT
1 ATATTTAAATTT
3183411 ATAAATTTAAATTT
1 AT--ATTTAAATTT
3183425 A
1 A
3183426 CTAAACCTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 13 0.54
14 11 0.46
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (12 bp):
ATATTTAAATTT
Found at i:3183416 original size:20 final size:20
Alignment explanation
Indices: 3183378--3183425 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
3183368 GCATGAAAAA
3183378 AAATTATAAATATTAAAATTT
1 AAATT-TAAATATTAAAATTT
*
3183399 ATATTTAAAT-TTATAAATTT
1 AAATTTAAATATTA-AAATTT
3183419 AAATTTA
1 AAATTTA
3183426 CTAAACCTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 3 0.12
20 17 0.71
21 4 0.17
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
AAATTTAAATATTAAAATTT
Found at i:3183420 original size:14 final size:14
Alignment explanation
Indices: 3183381--3183430 Score: 59
Period size: 14 Copynumber: 3.5 Consensus size: 14
3183371 TGAAAAAAAA
3183381 TTATAAATATTAAAAT
1 TTATAAAT-TT-AAAT
3183397 TTAT--ATTTAAAT
1 TTATAAATTTAAAT
3183409 TTATAAATTTAAAT
1 TTATAAATTTAAAT
3183423 TTACTAAA
1 TTA-TAAA
3183431 CCTCACTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
12 8 0.26
13 2 0.06
14 13 0.42
15 4 0.13
16 4 0.13
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (14 bp):
TTATAAATTTAAAT
Found at i:3185848 original size:16 final size:16
Alignment explanation
Indices: 3185827--3185874 Score: 78
Period size: 16 Copynumber: 3.0 Consensus size: 16
3185817 TTTGAGTATT
*
3185827 TTTTAAGTTTAAATTA
1 TTTTAAATTTAAATTA
*
3185843 TTTTAAATATAAATTA
1 TTTTAAATTTAAATTA
3185859 TTTTAAATTTAAATTA
1 TTTTAAATTTAAATTA
3185875 AATTAGATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (16 bp):
TTTTAAATTTAAATTA
Found at i:3185885 original size:22 final size:21
Alignment explanation
Indices: 3185844--3185903 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
3185834 TTTAAATTAT
*
3185844 TTTAAATATAAATTATTTTAAA
1 TTTAAAT-TAAATTAATTTAAA
**
3185866 TTTAAATTAAATTAGATTTATT
1 TTTAAATTAAATTA-ATTTAAA
*
3185888 TTTAAATTTAA-TAATT
1 TTTAAATTAAATTAATT
3185904 AATTTTATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 3 0.09
21 9 0.27
22 21 0.64
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (21 bp):
TTTAAATTAAATTAATTTAAA
Found at i:3187542 original size:14 final size:14
Alignment explanation
Indices: 3187523--3187549 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
3187513 TAATTAATTA
3187523 AAATAAATATTAAT
1 AAATAAATATTAAT
3187537 AAATAAATATTAA
1 AAATAAATATTAA
3187550 AAGTAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
AAATAAATATTAAT
Found at i:3187558 original size:14 final size:12
Alignment explanation
Indices: 3187499--3187560 Score: 54
Period size: 12 Copynumber: 4.9 Consensus size: 12
3187489 TTATAAATAT
*
3187499 AATAAATATTAG
1 AATAAATATTAA
* *
3187511 TATAATTAATTAA
1 AATAAAT-ATTAA
3187524 AATAAATATTAATA
1 AATAAATATT-A-A
3187538 AATAAATATTAA
1 AATAAATATTAA
3187550 AAGTAAA-ATTA
1 AA-TAAATATTA
3187561 CAATTATAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
12 15 0.37
13 15 0.37
14 11 0.27
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.35
Consensus pattern (12 bp):
AATAAATATTAA
Found at i:3187826 original size:21 final size:21
Alignment explanation
Indices: 3187785--3187827 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
3187775 TATTATATTT
* **
3187785 AATATTTTTTAAATATTTTAA
1 AATATTATTTAAATAAATTAA
3187806 AATATTATTTAAATAAATTAA
1 AATATTATTTAAATAAATTAA
3187827 A
1 A
3187828 TAATTTTAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AATATTATTTAAATAAATTAA
Found at i:3188209 original size:21 final size:20
Alignment explanation
Indices: 3188170--3188209 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
3188160 CTTGCTTAAG
*
3188170 TATTGGAGAGGGGGTGGTAC
1 TATTGGAGAGGGGGCGGTAC
*
3188190 TATTGGTAGAGGTGGCGGTA
1 TATTGG-AGAGGGGGCGGTA
3188210 ATGCTTGTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.20, C:0.05, G:0.47, T:0.28
Consensus pattern (20 bp):
TATTGGAGAGGGGGCGGTAC
Found at i:3190621 original size:22 final size:24
Alignment explanation
Indices: 3190588--3190641 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
3190578 CTAAGCTTTG
3190588 AAAAT-AAAAAATTAT-AAT-TTA
1 AAAATAAAAAAATTATAAATATTA
3190609 AAAATAAAAAAATTATAAATATTA
1 AAAATAAAAAAATTATAAATATTA
*
3190633 AAATTAAAA
1 AAAATAAAA
3190642 TTAAAATTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 5 0.17
22 10 0.34
23 3 0.10
24 11 0.38
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (24 bp):
AAAATAAAAAAATTATAAATATTA
Found at i:3190763 original size:19 final size:19
Alignment explanation
Indices: 3190736--3190836 Score: 51
Period size: 19 Copynumber: 5.7 Consensus size: 19
3190726 AAGTCATGGA
*
3190736 TAAACATAATAAATTAAAT
1 TAAATATAATAAATTAAAT
* *
3190755 TAAATATAAT-TATATAAAA
1 TAAATATAATAAAT-TAAAT
* *
3190774 TGAACATAATATAA--AAA-
1 TAAATATAATA-AATTAAAT
3190791 T-AAT-T-A-AAATTAATAT
1 TAAATATAATAAATTAA-AT
*
3190807 AAAATATAA-AAA-TAAAT
1 TAAATATAATAAATTAAAT
3190824 TAAATATAATAAA
1 TAAATATAATAAA
3190837 AATTTATTTG
Statistics
Matches: 62, Mismatches: 9, Indels: 23
0.66 0.10 0.24
Matches are distributed among these distances:
12 2 0.03
13 1 0.02
14 3 0.05
15 2 0.03
16 2 0.03
17 14 0.23
18 12 0.19
19 25 0.40
21 1 0.02
ACGTcount: A:0.65, C:0.02, G:0.01, T:0.32
Consensus pattern (19 bp):
TAAATATAATAAATTAAAT
Found at i:3190818 original size:28 final size:28
Alignment explanation
Indices: 3190781--3190839 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 28
3190771 AAATGAACAT
3190781 AATATAAAAAT-AATTAAA-ATTAATATAA
1 AATATAAAAATAAATTAAATA-TAATA-AA
3190809 AATATAAAAATAAATTAAATATAATAAA
1 AATATAAAAATAAATTAAATATAATAAA
3190837 AAT
1 AAT
3190840 TTATTTGAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
28 16 0.55
29 12 0.41
30 1 0.03
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (28 bp):
AATATAAAAATAAATTAAATATAATAAA
Found at i:3191440 original size:17 final size:17
Alignment explanation
Indices: 3191420--3191469 Score: 55
Period size: 19 Copynumber: 2.8 Consensus size: 17
3191410 TTAATAAGAT
3191420 AAATATAAATATAATAA
1 AAATATAAATATAATAA
*
3191437 AAATAATTAAATATATTAA
1 AAAT-A-TAAATATAATAA
* *
3191456 AATTTTAAATATAA
1 AAATATAAATATAA
3191470 AATTAATATA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
17 12 0.44
18 1 0.04
19 14 0.52
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATATAAATATAATAA
Found at i:3191449 original size:19 final size:18
Alignment explanation
Indices: 3191420--3191469 Score: 59
Period size: 17 Copynumber: 2.8 Consensus size: 18
3191410 TTAATAAGAT
3191420 AAATA-TAAATATAATAA
1 AAATATTAAATATAATAA
*
3191437 AAATAATTAAATAT-ATTA
1 AAAT-ATTAAATATAATAA
*
3191455 AAATTTTAAATATAA
1 AAATATTAAATATAA
3191470 AATTAATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
17 12 0.43
18 9 0.32
19 7 0.25
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
AAATATTAAATATAATAA
Found at i:3191839 original size:14 final size:15
Alignment explanation
Indices: 3191822--3191854 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
3191812 GTAAAATTTT
3191822 AAATATAA-AAAATA
1 AAATATAATAAAATA
3191836 AAAT-TAATAAAATA
1 AAATATAATAAAATA
3191850 AAATA
1 AAATA
3191855 AAATTTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 3 0.18
14 14 0.82
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
AAATATAATAAAATA
Found at i:3192319 original size:2 final size:2
Alignment explanation
Indices: 3192312--3192351 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
3192302 TTTGTTTATT
* * *
3192312 TA TA TA TA CA TA CA TA CA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3192352 AACATTTACT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.42
Consensus pattern (2 bp):
TA
Found at i:3193145 original size:27 final size:27
Alignment explanation
Indices: 3193107--3193159 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
3193097 TGCAGCCTTC
* *
3193107 ACTATTTCAAATTGAATTTCATAATTT
1 ACTATTTCAAATTGAATGTCAAAATTT
3193134 ACTATTTCAAATTGAATGTCAAAATT
1 ACTATTTCAAATTGAATGTCAAAATT
3193160 GGCGGCACAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.40, C:0.11, G:0.06, T:0.43
Consensus pattern (27 bp):
ACTATTTCAAATTGAATGTCAAAATTT
Found at i:3193173 original size:12 final size:12
Alignment explanation
Indices: 3193158--3193189 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
3193148 AATGTCAAAA
*
3193158 TTGGCGGCACAG
1 TTGGCAGCACAG
3193170 TTGGCAGCACAG
1 TTGGCAGCACAG
3193182 TTGGCAGC
1 TTGGCAGC
3193190 CTTTGTTGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.19, C:0.25, G:0.38, T:0.19
Consensus pattern (12 bp):
TTGGCAGCACAG
Done.