Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr6
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: 47432654
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2298022 characters in sequence are not A, C, G, or T
File 24 of 136
Found at i:7453050 original size:16 final size:16
Alignment explanation
Indices: 7453028--7453070 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
7453018 CTGATCTGCA
*
7453028 ATATATATATATGAAT
1 ATATATATATATAAAT
*
7453044 TTATATATATATAAAT
1 ATATATATATATAAAT
*
7453060 ATATGTATATA
1 ATATATATATA
7453071 ACTGATCTGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.47
Consensus pattern (16 bp):
ATATATATATATAAAT
Found at i:7453062 original size:14 final size:14
Alignment explanation
Indices: 7453027--7453071 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
7453017 TCTGATCTGC
7453027 AATATATATATATGA
1 AATATATATATAT-A
*
7453042 ATTTATATATATATA
1 A-ATATATATATATA
*
7453057 AATATATGTATATA
1 AATATATATATATA
7453071 A
1 A
7453072 CTGATCTGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
14 12 0.46
15 3 0.12
16 11 0.42
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.44
Consensus pattern (14 bp):
AATATATATATATA
Found at i:7462820 original size:46 final size:44
Alignment explanation
Indices: 7462753--7462860 Score: 146
Period size: 46 Copynumber: 2.4 Consensus size: 44
7462743 TTAAGGGTAC
* * *
7462753 GTTTGGTTCACTGTAATGGAATAGAGCTGTAATAAGTAATTCAAT-T
1 GTTTGGTTGAATGGAATGGAATAGAGCTGTAAT-AGT-ATTC-ATGT
*
7462799 GTTTGGTTGAATGGAATGGAATAGAGCTGTAATAGTATTCTTGT
1 GTTTGGTTGAATGGAATGGAATAGAGCTGTAATAGTATTCATGT
7462843 GTTTGGTTGAATGGAATG
1 GTTTGGTTGAATGGAATG
7462861 ATGTTATAAT
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
43 1 0.02
44 23 0.40
45 3 0.05
46 30 0.53
ACGTcount: A:0.29, C:0.06, G:0.28, T:0.38
Consensus pattern (44 bp):
GTTTGGTTGAATGGAATGGAATAGAGCTGTAATAGTATTCATGT
Found at i:7465851 original size:3 final size:3
Alignment explanation
Indices: 7465837--7465886 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
7465827 AAATGACATT
* * * *
7465837 TTA TTA TT- TTA TTA TTA TTG TTA TTA TTA ATA CTA TTG TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
7465883 TTA T
1 TTA T
7465887 GGAATAAATT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
2 4 0.11
3 34 0.89
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:7468080 original size:51 final size:51
Alignment explanation
Indices: 7468004--7468379 Score: 489
Period size: 51 Copynumber: 7.5 Consensus size: 51
7467994 TTTTAGTACT
* *
7468004 TCTGATCAGTGACAAGTGATAAGTGATAAGTGATAGCCTCAGCTACACTTA
1 TCTGATCAGTGACAAGTGATAAGTGATAAGTGATAGCTTTAGCTACACTTA
*
7468055 TCTGATCAGTGACAAGTGATAAGTGATAAGTGATAGCTTCAGCTACACTTA
1 TCTGATCAGTGACAAGTGATAAGTGATAAGTGATAGCTTTAGCTACACTTA
** *
7468106 TCTGATCAGTGACAAGTGGCAAGTGATAAGTGATAGCTTTAGCTACATTTA
1 TCTGATCAGTGACAAGTGATAAGTGATAAGTGATAGCTTTAGCTACACTTA
* *
7468157 TCTGATCAGTGACAAGTGAAAAGTGATAAGTGATATCTTTAGCTACACTTA
1 TCTGATCAGTGACAAGTGATAAGTGATAAGTGATAGCTTTAGCTACACTTA
* *
7468208 TCTGATCAGTGACAA--G-T--G-G-CAAGTGATAGCTTTAGTTACACTTA
1 TCTGATCAGTGACAAGTGATAAGTGATAAGTGATAGCTTTAGCTACACTTA
* ** *
7468252 TCTGATCAGCGACAAGTGGCAAGTGATAAGTGATAGCTTTAGTTACACTTA
1 TCTGATCAGTGACAAGTGATAAGTGATAAGTGATAGCTTTAGCTACACTTA
* * ** * * *
7468303 TCTGATCAGCGACAAATGGCAGGTGATAAGTGGTAAC-TTAGCTACACTTA
1 TCTGATCAGTGACAAGTGATAAGTGATAAGTGATAGCTTTAGCTACACTTA
* *
7468353 TTTGATCAGAGACAAGTGATAAGTGAT
1 TCTGATCAGTGACAAGTGATAAGTGAT
7468380 CATATGTAAG
Statistics
Matches: 291, Mismatches: 27, Indels: 15
0.87 0.08 0.05
Matches are distributed among these distances:
44 36 0.12
45 1 0.00
46 2 0.01
49 2 0.01
50 34 0.12
51 216 0.74
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.30
Consensus pattern (51 bp):
TCTGATCAGTGACAAGTGATAAGTGATAAGTGATAGCTTTAGCTACACTTA
Found at i:7470721 original size:14 final size:15
Alignment explanation
Indices: 7470694--7470727 Score: 61
Period size: 14 Copynumber: 2.3 Consensus size: 15
7470684 CCCAACTAGC
7470694 CCAAATACAACCAAA
1 CCAAATACAACCAAA
7470709 CCAAATA-AACCAAA
1 CCAAATACAACCAAA
7470723 CCAAA
1 CCAAA
7470728 ATTAATTAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.62, C:0.32, G:0.00, T:0.06
Consensus pattern (15 bp):
CCAAATACAACCAAA
Found at i:7471907 original size:3 final size:3
Alignment explanation
Indices: 7471876--7471980 Score: 74
Period size: 3 Copynumber: 34.7 Consensus size: 3
7471866 CTTTTTATAT
*
7471876 TTA TCTA TTCA TTA TTA -TA TCA TTA -TA TTA TT- TTA TTA GTT- TTGCA
1 TTA T-TA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TT--A
* * * * * *
7471922 TTA TTA TTT TTG TTG TTA TTA TTA TTA TTA ATA TTA TTA TTG TTA TCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
7471970 TTA TTA TTA TT
1 TTA TTA TTA TT
7471981 TATGTCTTGC
Statistics
Matches: 82, Mismatches: 11, Indels: 18
0.74 0.10 0.16
Matches are distributed among these distances:
2 8 0.10
3 64 0.78
4 8 0.10
5 2 0.02
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:7472225 original size:15 final size:15
Alignment explanation
Indices: 7472207--7472255 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
7472197 GAGTGTTTTA
*
7472207 ATATTATTTGTTTGT
1 ATATTATGTGTTTGT
7472222 ATATT-TGT-TTTGT
1 ATATTATGTGTTTGT
* *
7472235 ACATTATGAGTTTGT
1 ATATTATGTGTTTGT
7472250 -TATTAT
1 ATATTAT
7472256 TATTATTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
13 9 0.32
14 9 0.32
15 10 0.36
ACGTcount: A:0.22, C:0.02, G:0.14, T:0.61
Consensus pattern (15 bp):
ATATTATGTGTTTGT
Found at i:7493016 original size:612 final size:617
Alignment explanation
Indices: 7491945--7494833 Score: 3688
Period size: 637 Copynumber: 4.6 Consensus size: 617
7491935 GAAATAACAC
* * * *
7491945 AATCCCACTTTTATCTTTTGTAAAGAAATATATTTGGTATTCTTTAATGACGTAGGCGTAATTTG
1 AATCCCACTTATATCTTTTGTAATGAAATATATTTGGTATTGTTTGATGACGTAGGCGTAATTTG
* * * *
7492010 TCAAGCCTCGTTAAATTT-TTCATGTTCATTATTGTAATTTTGTAGGGTACAATTGTGATGATAT
66 TCGAGCCTCGTTAAATTTCTT-GTGTTCTTTATTGTTATTTTGTAGGGTACAATTGTGATGATAT
* * * * *
7492074 ATTGTGCTACTAGAATGAATTATAGGGAGATTTTTTCTAGGAGGTTAGGTTTTAAAACACTCAGA
130 ATTGTGTTATTAGAATAAATTATAGGGAGATTCTGTCTAGGAGGTTAGGTTTTAAAACACTCAGA
* *
7492139 TTTAGTCTGATTGAAGGCATTTAGAATGGTTGTTGAAAGCTTATTAATTCAGTACTAATAGGATT
195 TTTAGTCTGATTGAAGGCATTTAGAATGGTCGTTGAAAGCTTATTAATTCAGTGCTAATAGGATT
*
7492204 ATGAGTGATATGATTAAATATCTTTTCATTTTTAACTTTCCAAATGATCCATAAGCTGACAATAA
260 ATGAGTGATATGATTAAATATCTTTTCATTTTTAACTTTCCAAATGATCCATAAGCCGACAATAA
* * * * * * *
7492269 AATAAGTAAAGAACTCGTGGTCTATGTCACTAACAACATCAATTGTATCAAGTCAACTCTGCAGA
325 GATAAGTAAAGAACTCGTGATCTGTGTCACTAATAGCATCAATTGTATCAAGTCAACCCTGTAGA
* * *
7492334 TTTTGAAGTAACGTCATGTGACGTAACTCATCCAATCTAAGTGACAGATGACATCCAAACCAAAC
390 TTTTGAAGTAACGTCATGTGACGTAACTCATCCAATCTGAGTGACAGATGGCATCAAAACCAAAC
* *
7492399 TACCTAGCAAAATTACATTCCTCGAATAACTTCTCGACAGTTTCGTTATGCTCCTAACACAAAGG
455 TACCTAGCAAAATTACATTCCTTGAATAACTTCTCGACAGTTTCGTTATGCTCCTAAAACAAAGG
*
7492464 ACATTCTGAAAATGCATTAATTGAGCCCTTTTGTAGCTCCATTCATGTGGGAAGATGATTATGGC
520 ACATTCTGAAAGTGCATTAATTGAGCCCTTTTGTAGCTCCATTCATGTGGGAAGATGATTATGGC
*
7492529 AAAGTTTCCAAAAAT-AGAAAAGTA-C-C-AG-
585 AAAGTTTCCAAAAATAAAAAAAGTATCACTAGA
* * *
7492557 AATCCCACTTATATCTTTTGTAATGAAATATATTTGGTATTGTTTGATGACGCAGGTGTAATTTA
1 AATCCCACTTATATCTTTTGTAATGAAATATATTTGGTATTGTTTGATGACGTAGGCGTAATTTG
*
7492622 TCGAGCCTCGATAAATTTCTTGTGTTCTTTATTGTTATTTTGTAGGGTACAATTGTGATGATATA
66 TCGAGCCTCGTTAAATTTCTTGTGTTCTTTATTGTTATTTTGTAGGGTACAATTGTGATGATATA
* * * *
7492687 TTATGTTATTAGAATAAATTATAGGGGGAATCTG-CTTAGGAGGTTAGGTTTTAAAACACTTAGA
131 TTGTGTTATTAGAATAAATTATAGGGAGATTCTGTC-TAGGAGGTTAGGTTTTAAAACACTCAGA
* * * * *
7492751 TTTAGTCTAATTCAAGGCATTGAGAATGGTCGTTGAAAGATTATTAATTCACTGCTAATAGGATT
195 TTTAGTCTGATTGAAGGCATTTAGAATGGTCGTTGAAAGCTTATTAATTCAGTGCTAATAGGATT
* * *
7492816 ATGACTGATATGATTAAATATATTTTCATTTTTAACTTTCCAAATGATTCATAAGCCGACAATAA
260 ATGAGTGATATGATTAAATATCTTTTCATTTTTAACTTTCCAAATGATCCATAAGCCGACAATAA
* * *
7492881 GATAGGTAGAGAACTCGTGATCTGTGTCACTAATAGCATCAATTGTATCAAGTCAACCCTATAGA
325 GATAAGTAAAGAACTCGTGATCTGTGTCACTAATAGCATCAATTGTATCAAGTCAACCCTGTAGA
* * *
7492946 TTTTGAAGTAACGTCGTGTGACGTAACTCATCCAATCTGAGTGACAGATGGCATCCAAACTAAAC
390 TTTTGAAGTAACGTCATGTGACGTAACTCATCCAATCTGAGTGACAGATGGCATCAAAACCAAAC
* * * *
7493011 TACCTAACAAAATTACATTCCTTGAATAACTTCTCGACAGTTCCGTTATGCTCTTAACACAAAGG
455 TACCTAGCAAAATTACATTCCTTGAATAACTTCTCGACAGTTTCGTTATGCTCCTAAAACAAAGG
* * * *
7493076 ACATTCTGAAAGTGCATTAATTGAGCCCTTTTGTAGCTCTATTAATGTGGAAAGATGATTATGAC
520 ACATTCTGAAAGTGCATTAATTGAGCCCTTTTGTAGCTCCATTCATGTGGGAAGATGATTATGGC
* *
7493141 AAAGTTTCTAAAAATAAAAAAAAAGTACCAATATCTTGAATTGTTGAAATAACA
585 AAAGTTTCCAAAAAT--AAAAAAAGTATC---A-C-T--A-----G-------A
*
7493195 CAATCCCACTT-TATCTTTTGTAATGAGATATATTTGGTATTGTTTGATGACGTAGGCGTAATTT
1 -AATCCCACTTATATCTTTTGTAATGAAATATATTTGGTATTGTTTGATGACGTAGGCGTAATTT
*
7493259 GTCGAGCCTCGTTAAATTTCTCGTGTTC---------A------A---T---ATTGTGATGATAT
65 GTCGAGCCTCGTTAAATTTCTTGTGTTCTTTATTGTTATTTTGTAGGGTACAATTGTGATGATAT
* * *
7493303 ATTGTGCTATTACAATAAATTATAGGGAGATTCTGTCTAGGAGGTTAGGTTCTAAAACACTCAGA
130 ATTGTGTTATTAGAATAAATTATAGGGAGATTCTGTCTAGGAGGTTAGGTTTTAAAACACTCAGA
* * * *
7493368 TTTAGTTTGATTGAAGGCATTTAGAATAGTCGTTGAAAGCTTCTTAATGCAGTGCTAATAGGATT
195 TTTAGTCTGATTGAAGGCATTTAGAATGGTCGTTGAAAGCTTATTAATTCAGTGCTAATAGGATT
*
7493433 ATGATTGATATGATTAAATATCTTTTCATTTTTAACTTTCCAAATGATCCATAAGCCGACAATAA
260 ATGAGTGATATGATTAAATATCTTTTCATTTTTAACTTTCCAAATGATCCATAAGCCGACAATAA
* * * *
7493498 GATAAGTAAAGAACTCGTGATCTGTGTTACTAACAACATCAATTGTATCAAGTCAACCTTGTAGA
325 GATAAGTAAAGAACTCGTGATCTGTGTCACTAATAGCATCAATTGTATCAAGTCAACCCTGTAGA
7493563 TTTTGAAGTAACGTCATGTGACGTAACTCATCCAATCTGAGTGACAGATGGCATCAAAACCAAAC
390 TTTTGAAGTAACGTCATGTGACGTAACTCATCCAATCTGAGTGACAGATGGCATCAAAACCAAAC
* * * * *
7493628 TACCTAGCAAAACTACATTCATTGAATAACTTCTCGGCTA-TTTTGTTATGCTCCTAAAACAAAT
455 TACCTAGCAAAATTACATTCCTTGAATAACTTCTCGAC-AGTTTCGTTATGCTCCTAAAACAAAG
*
7493692 GACATTCTGAAAGTGCATTAATTGAGCCCTTCTGTAGCTCCATTCATGTGGGAAGATGATTATGG
519 GACATTCTGAAAGTGCATTAATTGAGCCCTTTTGTAGCTCCATTCATGTGGGAAGATGATTATGG
* * *
7493757 TAAAATTTCTAAAAATAAAAAAAGTATCAGTATCTTGAATTGTTGAAATAGTA
584 CAAAGTTTCCAAAAATAAAAAAAGTATC---A-C--------------TAG-A
* * *
7493810 CAATCCCACTTATATCTTTTCTAATGAAATATATTTGGTATTGTTTGGTAACGTAGGCGTAATTT
1 -AATCCCACTTATATCTTTTGTAATGAAATATATTTGGTATTGTTTGATGACGTAGGCGTAATTT
* * * *
7493875 GTCAAGCCTCGTTAAATTTCTCGTGTTCTTTTTTCGTTATTTTGTAGGGTATAATTGTGATGATA
65 GTCGAGCCTCGTTAAATTTCTTGTGTTCTTTATT-GTTATTTTGTAGGGTACAATTGTGATGATA
*
7493940 TATTGTGTTGTTAGAATAAATTA-AGGGAGATTCTGTCTAGGAGGTTAGGTTTTAAAACACTCAG
129 TATTGTGTTATTAGAATAAATTATAGGGAGATTCTGTCTAGGAGGTTAGGTTTTAAAACACTCAG
* * * * *
7494004 ATTTACTCTAATTGAATGCACTTAGAATGGTCGTTGAAAGCTTATTAATTCAATGCTAATAGGAT
194 ATTTAGTCTGATTGAAGGCATTTAGAATGGTCGTTGAAAGCTTATTAATTCAGTGCTAATAGGAT
* * *
7494069 TATGAGTGATATAATTAAATATCTTTTCATTTTTAACTTTCCAAATGATCCATAACCCAACAATA
259 TATGAGTGATATGATTAAATATCTTTTCATTTTTAACTTTCCAAATGATCCATAAGCCGACAATA
* *
7494134 AGATAAGTAAAGAACTCGTGATATGTGTCACTAATAGCATCAACTGTATCAAGTCAACCCTGTAG
324 AGATAAGTAAAGAACTCGTGATCTGTGTCACTAATAGCATCAATTGTATCAAGTCAACCCTGTAG
* * * *
7494199 ATTTTGAAATAATGTCATGTGACGTAACACATCCAACCTGAGTGACAGATGGCATCAAAACCAAA
389 ATTTTGAAGTAACGTCATGTGACGTAACTCATCCAATCTGAGTGACAGATGGCATCAAAACCAAA
* * * * *
7494264 CTACCTAGCAAAATTACATTCCTTGAATAGCTTCTCGACAATTTCATTATGCTCCTAAAATAAAA
454 CTACCTAGCAAAATTACATTCCTTGAATAACTTCTCGACAGTTTCGTTATGCTCCTAAAACAAAG
*
7494329 GACATCCTGAAAGTGCATTAATTGAGCCCTTTTGTAGCTCCATTCACT-TGGGAAGATGATTATG
519 GACATTCTGAAAGTGCATTAATTGAGCCCTTTTGTAGCTCCATTCA-TGTGGGAAGATGATTATG
*
7494393 GCAGAGTTTCCAAAAATAAAAAAAGTATCAATATCTTGTATAGTTGAAATAGCA
583 GCAAAGTTTCCAAAAATAAAAAAAGTATC---A-C--------------TAG-A
*
7494447 CAATCCCACTTATATCTTTTGTAATGAAATATATTTGGTATTGTTAGATGACGTAGGCGTAATTT
1 -AATCCCACTTATATCTTTTGTAATGAAATATATTTGGTATTGTTTGATGACGTAGGCGTAATTT
* * * *
7494512 G-CTGAGCCTCGTTAAATTTTTTGTGTTCTATATTGTTATTTTGTA-GGTCATAATTGTAATGAT
65 GTC-GAGCCTCGTTAAATTTCTTGTGTTCTTTATTGTTATTTTGTAGGGT-ACAATTGTGATGAT
* * *
7494575 ATATTGTTTTGTTAGAATAAATTATAGGGAGATTCTGGCTAGGAGGTTAGGTTTTAAAACACTCA
128 ATATTGTGTTATTAGAATAAATTATAGGGAGATTCTGTCTAGGAGGTTAGGTTTTAAAACACTCA
* * * * *
7494640 GATTTACTCTGATTGAAGGCATTTAGAATGATTGTTAAAAGTTTATTAATTCAGTGCTAATAGGA
193 GATTTAGTCTGATTGAAGGCATTTAGAATGGTCGTTGAAAGCTTATTAATTCAGTGCTAATAGGA
* * * *
7494705 TTATGAGTTATATGATTAAATATCTTTTCATTTTTAACTTTCCAAGTGATCCATAA-CTCAACAT
258 TTATGAGTGATATGATTAAATATCTTTTCATTTTTAACTTTCCAAATGATCCATAAGC-CGACAA
* * * *
7494769 TAAGATTAGTAAAGATCTCGTGGTCTGTGTCACTAATAGCATCAACTGTATCAAGTCAACCCTGT
322 TAAGATAAGTAAAGAACTCGTGATCTGTGTCACTAATAGCATCAATTGTATCAAGTCAACCCTGT
7494834 TGTAACACCC
Statistics
Matches: 2014, Mismatches: 190, Indels: 121
0.87 0.08 0.05
Matches are distributed among these distances:
611 1 0.00
612 538 0.27
613 2 0.00
615 36 0.02
616 77 0.04
617 434 0.22
618 2 0.00
620 1 0.00
621 2 0.00
623 1 0.00
625 1 0.00
626 2 0.00
628 1 0.00
629 1 0.00
630 1 0.00
632 1 0.00
635 4 0.00
636 50 0.02
637 741 0.37
638 108 0.05
639 10 0.00
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (617 bp):
AATCCCACTTATATCTTTTGTAATGAAATATATTTGGTATTGTTTGATGACGTAGGCGTAATTTG
TCGAGCCTCGTTAAATTTCTTGTGTTCTTTATTGTTATTTTGTAGGGTACAATTGTGATGATATA
TTGTGTTATTAGAATAAATTATAGGGAGATTCTGTCTAGGAGGTTAGGTTTTAAAACACTCAGAT
TTAGTCTGATTGAAGGCATTTAGAATGGTCGTTGAAAGCTTATTAATTCAGTGCTAATAGGATTA
TGAGTGATATGATTAAATATCTTTTCATTTTTAACTTTCCAAATGATCCATAAGCCGACAATAAG
ATAAGTAAAGAACTCGTGATCTGTGTCACTAATAGCATCAATTGTATCAAGTCAACCCTGTAGAT
TTTGAAGTAACGTCATGTGACGTAACTCATCCAATCTGAGTGACAGATGGCATCAAAACCAAACT
ACCTAGCAAAATTACATTCCTTGAATAACTTCTCGACAGTTTCGTTATGCTCCTAAAACAAAGGA
CATTCTGAAAGTGCATTAATTGAGCCCTTTTGTAGCTCCATTCATGTGGGAAGATGATTATGGCA
AAGTTTCCAAAAATAAAAAAAGTATCACTAGA
Found at i:7496595 original size:151 final size:151
Alignment explanation
Indices: 7496311--7496600 Score: 402
Period size: 151 Copynumber: 1.9 Consensus size: 151
7496301 TTCATAGGTC
** ** *
7496311 TGCTCACACAAGCTGTCAGTCTTTTGTTACTATTCAGTGCTACTCACACAAGCTGTCAGGTATCC
1 TGCTCACACAAGCTGTCAGTCACTCATTACTATTCAGTGCTACTCACACAAGCTGTCAAGTATCC
** * *
7496376 GAAACATATGCTGGTATACCCAGCCACTAATAGAACTTAAGACCAGCACCCGAGTTCACATTAAT
66 GAAACATATGCCAGTATACCCAACCACTAATAGAACTTAAGACCAGCACCCGAGTCCACATTAAT
*
7496441 CACAGTTTCGCATCACGGGCT
131 CACAATTTCGCATCACGGGCT
* *
7496462 TGCTCACACAAGCTGTCAGTCACTCATTACTATTCAGTGCTGCTCACACAAGCTGTCAAGTATCT
1 TGCTCACACAAGCTGTCAGTCACTCATTACTATTCAGTGCTACTCACACAAGCTGTCAAGTATCC
* ** * * *
7496527 GCAACATATGCCAGTATACCCAACCACTGGTAGAACTTATGACCAGCACCCG-GATCCACTTTAT
66 GAAACATATGCCAGTATACCCAACCACTAATAGAACTTAAGACCAGCACCCGAG-TCCACATTAA
7496591 TCACAATTTC
130 TCACAATTTC
7496601 ACATAGGTCT
Statistics
Matches: 120, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
150 1 0.01
151 119 0.99
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.27
Consensus pattern (151 bp):
TGCTCACACAAGCTGTCAGTCACTCATTACTATTCAGTGCTACTCACACAAGCTGTCAAGTATCC
GAAACATATGCCAGTATACCCAACCACTAATAGAACTTAAGACCAGCACCCGAGTCCACATTAAT
CACAATTTCGCATCACGGGCT
Found at i:7501025 original size:27 final size:27
Alignment explanation
Indices: 7500983--7501045 Score: 108
Period size: 27 Copynumber: 2.3 Consensus size: 27
7500973 GGTAATGGAA
7500983 TGGCGGCACCGATGGTGCCATTCTCAT
1 TGGCGGCACCGATGGTGCCATTCTCAT
* *
7501010 TGGTGGCACCGGTGGTGCCATTCTCAT
1 TGGCGGCACCGATGGTGCCATTCTCAT
7501037 TGGCGGCAC
1 TGGCGGCAC
7501046 AGGACTAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.13, C:0.29, G:0.33, T:0.25
Consensus pattern (27 bp):
TGGCGGCACCGATGGTGCCATTCTCAT
Found at i:7501834 original size:15 final size:15
Alignment explanation
Indices: 7501814--7501842 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
7501804 ATATAATAAT
7501814 AAAAGTAAGATTAAA
1 AAAAGTAAGATTAAA
7501829 AAAAGTAAGATTAA
1 AAAAGTAAGATTAA
7501843 TTAAAATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.66, C:0.00, G:0.14, T:0.21
Consensus pattern (15 bp):
AAAAGTAAGATTAAA
Found at i:7502605 original size:20 final size:21
Alignment explanation
Indices: 7502571--7502615 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
7502561 TAAATAAATT
7502571 TTTTTATATTATTTTGGTA-TA
1 TTTTTATATTATTTT-GTATTA
*
7502592 TTTTTAT-TTCTTTTGTATTA
1 TTTTTATATTATTTTGTATTA
7502612 TTTT
1 TTTT
7502616 AATAAAAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 3 0.14
20 12 0.55
21 7 0.32
ACGTcount: A:0.18, C:0.02, G:0.07, T:0.73
Consensus pattern (21 bp):
TTTTTATATTATTTTGTATTA
Found at i:7509191 original size:23 final size:24
Alignment explanation
Indices: 7509149--7509212 Score: 69
Period size: 23 Copynumber: 2.6 Consensus size: 24
7509139 TATTAGATAA
*
7509149 ATATAATTATCT-ATGTATGTAAT
1 ATATAATTATTTAATGTATGTAAT
*
7509172 ATATAATTATTTAATG-ATGTTAT
1 ATATAATTATTTAATGTATGTAAT
7509195 ATGAATAATTATGTTAAT
1 AT--ATAATTAT-TTAAT
7509213 AATTTATAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
23 19 0.54
24 3 0.09
25 8 0.23
26 5 0.14
ACGTcount: A:0.41, C:0.02, G:0.09, T:0.48
Consensus pattern (24 bp):
ATATAATTATTTAATGTATGTAAT
Found at i:7509287 original size:29 final size:30
Alignment explanation
Indices: 7509232--7509290 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
7509222 AAATTAAATT
*
7509232 AAATCAAAATTTCATGTATAAAATTACACA
1 AAATCAAAATTTCATATATAAAATTACACA
* *
7509262 AAATTAAAATTT-ATATATATAATTACACA
1 AAATCAAAATTTCATATATAAAATTACACA
7509291 TTAAACCAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 15 0.58
30 11 0.42
ACGTcount: A:0.54, C:0.10, G:0.02, T:0.34
Consensus pattern (30 bp):
AAATCAAAATTTCATATATAAAATTACACA
Found at i:7515833 original size:23 final size:22
Alignment explanation
Indices: 7515790--7515833 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
7515780 TTCTAAGTCG
7515790 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
7515813 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
7515834 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:7515943 original size:45 final size:45
Alignment explanation
Indices: 7515879--7515966 Score: 158
Period size: 45 Copynumber: 2.0 Consensus size: 45
7515869 ACAGATACTC
* *
7515879 GGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTCT
1 GGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCT
7515924 GGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGT
1 GGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGT
7515967 TCGGTTCACA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (45 bp):
GGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCT
Found at i:7516043 original size:51 final size:51
Alignment explanation
Indices: 7515973--7516106 Score: 148
Period size: 51 Copynumber: 2.6 Consensus size: 51
7515963 ATGTTCGGTT
* * *
7515973 CACATATTAGCTTGCACATAGTACTACACATGTGA-CC--ACTATCATCCGATA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGATCCAAACTATC--CAG-TA
* * * *
7516024 CACGTAGTATCCTGCACATAGTACTACACACGTGATCGAAACTATCCAGTA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGATCCAAACTATCCAGTA
*
7516075 CGCATAGTAGCCTGCACATAGTACTACACATG
1 CACATAGTAGCCTGCACATAGTACTACACATG
7516107 NNNNNNNNNN
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
51 60 0.87
52 3 0.04
54 6 0.09
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.25
Consensus pattern (51 bp):
CACATAGTAGCCTGCACATAGTACTACACATGTGATCCAAACTATCCAGTA
Found at i:7518403 original size:17 final size:18
Alignment explanation
Indices: 7518346--7518403 Score: 52
Period size: 17 Copynumber: 3.4 Consensus size: 18
7518336 ACACCATTAA
7518346 AAATAATAAAAA-ATACA-
1 AAATAATAAAAATATA-AT
*
7518363 AAAT-TTAAAAATATAAT
1 AAATAATAAAAATATAAT
* *
7518380 ATATAATAAAATTAT-AT
1 AAATAATAAAAATATAAT
7518397 AAATAAT
1 AAATAAT
7518404 TTAATATTTG
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
16 7 0.21
17 18 0.55
18 8 0.24
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (18 bp):
AAATAATAAAAATATAAT
Found at i:7525979 original size:18 final size:19
Alignment explanation
Indices: 7525949--7525984 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
7525939 AATAAAATAA
7525949 AAACTAGAAAACAAAAATT
1 AAACTAGAAAACAAAAATT
7525968 AAACTA-AAAACAAAAAT
1 AAACTAGAAAACAAAAAT
7525985 AAAATGCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.72, C:0.11, G:0.03, T:0.14
Consensus pattern (19 bp):
AAACTAGAAAACAAAAATT
Found at i:7529687 original size:21 final size:20
Alignment explanation
Indices: 7529663--7529704 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 20
7529653 TTTAAAAATA
7529663 AAAAAATAAAAAAAGTAT-TTT
1 AAAAAA-AAAAAAA-TATATTT
7529684 AAAAAAAAAAAAATATATTT
1 AAAAAAAAAAAAATATATTT
7529704 A
1 A
7529705 TCATATTCGG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 3 0.15
20 11 0.55
21 6 0.30
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.26
Consensus pattern (20 bp):
AAAAAAAAAAAAATATATTT
Found at i:7532298 original size:14 final size:14
Alignment explanation
Indices: 7532263--7532291 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
7532253 CCACCAGGAG
7532263 AAAAAGAAAACAAA
1 AAAAAGAAAACAAA
7532277 AAAAAGAAAA-AAA
1 AAAAAGAAAACAAA
7532290 AA
1 AA
7532292 GGAAGAAGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.33
14 10 0.67
ACGTcount: A:0.90, C:0.03, G:0.07, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAACAAA
Found at i:7539942 original size:94 final size:94
Alignment explanation
Indices: 7539835--7540086 Score: 504
Period size: 94 Copynumber: 2.7 Consensus size: 94
7539825 TACTATATAT
7539835 ATATATATTAATATATATTGAATAATTGAAAGTAGAAATTTTAAATTTATGTCAAATTTGACATA
1 ATATATATTAATATATATTGAATAATTGAAAGTAGAAATTTTAAATTTATGTCAAATTTGACATA
7539900 AATTTAAAATTTCTACTTTCAATTATTCA
66 AATTTAAAATTTCTACTTTCAATTATTCA
7539929 ATATATATTAATATATATTGAATAATTGAAAGTAGAAATTTTAAATTTATGTCAAATTTGACATA
1 ATATATATTAATATATATTGAATAATTGAAAGTAGAAATTTTAAATTTATGTCAAATTTGACATA
7539994 AATTTAAAATTTCTACTTTCAATTATTCA
66 AATTTAAAATTTCTACTTTCAATTATTCA
7540023 ATATATATTAATATATATTGAATAATTGAAAGTAGAAATTTTAAATTTATGTCAAATTTGACAT
1 ATATATATTAATATATATTGAATAATTGAAAGTAGAAATTTTAAATTTATGTCAAATTTGACAT
7540087 GCATGGTTTA
Statistics
Matches: 158, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
94 158 1.00
ACGTcount: A:0.44, C:0.06, G:0.07, T:0.43
Consensus pattern (94 bp):
ATATATATTAATATATATTGAATAATTGAAAGTAGAAATTTTAAATTTATGTCAAATTTGACATA
AATTTAAAATTTCTACTTTCAATTATTCA
Found at i:7545921 original size:1 final size:1
Alignment explanation
Indices: 7545915--7545952 Score: 76
Period size: 1 Copynumber: 38.0 Consensus size: 1
7545905 GAGTGGGTAG
7545915 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
7545953 AAAAAAAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:7548625 original size:6 final size:6
Alignment explanation
Indices: 7548616--7548646 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
7548606 GTGGTGATGT
7548616 GAGCGG GAGCGG GAGCGG GAGCGG GAGCGG G
1 GAGCGG GAGCGG GAGCGG GAGCGG GAGCGG G
7548647 GGCAAAGCAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.16, G:0.68, T:0.00
Consensus pattern (6 bp):
GAGCGG
Found at i:7557136 original size:10 final size:10
Alignment explanation
Indices: 7557119--7557153 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
7557109 TTATTATAAA
7557119 ATATATAATT
1 ATATATAATT
*
7557129 AAATATAATT
1 ATATATAATT
7557139 ATAT-TAATT
1 ATATATAATT
7557148 ATATAT
1 ATATAT
7557154 TACAATGTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 9 0.41
10 13 0.59
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (10 bp):
ATATATAATT
Found at i:7579054 original size:19 final size:20
Alignment explanation
Indices: 7579020--7579064 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
7579010 GTCTCTCTCG
7579020 TCAAAA-ATTTTCAAAAA-T
1 TCAAAATATTTTCAAAAATT
7579038 TCAAAATATTTAT-AAAAATT
1 TCAAAATATTT-TCAAAAATT
7579058 TCAAAAT
1 TCAAAAT
7579065 TTATATTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.25
19 9 0.38
20 9 0.38
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.36
Consensus pattern (20 bp):
TCAAAATATTTTCAAAAATT
Found at i:7579066 original size:18 final size:18
Alignment explanation
Indices: 7579020--7579069 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 18
7579010 GTCTCTCTCG
7579020 TCAAAAATTT-TCAAAAAT
1 TCAAAAATTTAT-AAAAAT
7579038 TCAAAATATTTATAAAAATT
1 TCAAAA-ATTTATAAAAA-T
7579058 TC-AAAATTTATA
1 TCAAAAATTTATA
7579070 TTTTTAAAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
18 13 0.45
19 12 0.41
20 4 0.14
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (18 bp):
TCAAAAATTTATAAAAAT
Found at i:7585620 original size:14 final size:13
Alignment explanation
Indices: 7585597--7585667 Score: 54
Period size: 14 Copynumber: 5.2 Consensus size: 13
7585587 AGCCAAATTG
7585597 AAAACCCTAAACA
1 AAAACCCTAAACA
7585610 AAAATCCCTAAAATCA
1 AAAA-CCCT-AAA-CA
* *
7585626 AAAACCATAAATCT
1 AAAACCCTAAA-CA
* *
7585640 TAAACCCTAAACT
1 AAAACCCTAAACA
*
7585653 AAAATCCTAAA-A
1 AAAACCCTAAACA
7585665 AAA
1 AAA
7585668 CACTAAACTA
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
12 3 0.06
13 15 0.31
14 18 0.38
15 6 0.12
16 6 0.12
ACGTcount: A:0.59, C:0.24, G:0.00, T:0.17
Consensus pattern (13 bp):
AAAACCCTAAACA
Found at i:7586810 original size:119 final size:120
Alignment explanation
Indices: 7586603--7586842 Score: 473
Period size: 119 Copynumber: 2.0 Consensus size: 120
7586593 ATTAACTCAA
7586603 ATAACTCAAACTATTTAATTCAAAATTTAAAAAAATTATTGAGTTTTTTGAATCGAATCGGATTT
1 ATAACTCAAACTATTTAATTCAAAATTTAAAAAAATTATTGAGTTTTTTGAATCGAATCGGATTT
7586668 TGCTCACCCCAGTTAAGGTGCTCCAAACAAAAACAAAAGACTAAACTGACCAAAT
66 TGCTCACCCCAGTTAAGGTGCTCCAAACAAAAACAAAAGACTAAACTGACCAAAT
7586723 ATAACTCAAAC-ATTTAATTCAAAATTTAAAAAAATTATTGAGTTTTTTGAATCGAATCGGATTT
1 ATAACTCAAACTATTTAATTCAAAATTTAAAAAAATTATTGAGTTTTTTGAATCGAATCGGATTT
7586787 TGCTCACCCCAGTTAAGGTGCTCCAAACAAAAACAAAAGACTAAACTGACCAAAT
66 TGCTCACCCCAGTTAAGGTGCTCCAAACAAAAACAAAAGACTAAACTGACCAAAT
7586842 A
1 A
7586843 ATCAAACGTT
Statistics
Matches: 120, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
119 109 0.91
120 11 0.09
ACGTcount: A:0.43, C:0.17, G:0.11, T:0.29
Consensus pattern (120 bp):
ATAACTCAAACTATTTAATTCAAAATTTAAAAAAATTATTGAGTTTTTTGAATCGAATCGGATTT
TGCTCACCCCAGTTAAGGTGCTCCAAACAAAAACAAAAGACTAAACTGACCAAAT
Found at i:7598099 original size:3 final size:3
Alignment explanation
Indices: 7598093--7598127 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
7598083 GTAAGTTATT
7598093 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
7598128 CTATTTTCAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:7603130 original size:26 final size:26
Alignment explanation
Indices: 7603092--7603141 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
7603082 TGTAAATGTG
*
7603092 ATTTATAAAATTTTAAAAATATTAAA
1 ATTTATAAAATTTTAAAAAAATTAAA
* *
7603118 ATTTCTAATATTTTAAAAAAATTA
1 ATTTATAAAATTTTAAAAAAATTA
7603142 GTAAAATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (26 bp):
ATTTATAAAATTTTAAAAAAATTAAA
Found at i:7603231 original size:29 final size:27
Alignment explanation
Indices: 7603191--7603256 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 27
7603181 TTTCTCTAAT
* *
7603191 TTTTTTATTTTC-TAACATATTTTTTGGA
1 TTTTTTATTTTCTTAA-A-ACTTTTTGAA
7603219 TTTTTTATATTTCTTAAAACTTTTTGAA
1 TTTTTTAT-TTTCTTAAAACTTTTTGAA
7603247 TTTTTTATTT
1 TTTTTTATTT
7603257 CTAAATTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
27 2 0.06
28 24 0.71
29 5 0.15
30 3 0.09
ACGTcount: A:0.23, C:0.06, G:0.05, T:0.67
Consensus pattern (27 bp):
TTTTTTATTTTCTTAAAACTTTTTGAA
Found at i:7604199 original size:4 final size:4
Alignment explanation
Indices: 7604190--7604219 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
7604180 AACCTCCAAG
7604190 ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
7604220 ACCACAAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:7607143 original size:14 final size:15
Alignment explanation
Indices: 7607124--7607152 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
7607114 TGAATCGGAT
7607124 TGAGAAA-CAAAAAA
1 TGAGAAAGCAAAAAA
7607138 TGAGAAAGCAAAAAA
1 TGAGAAAGCAAAAAA
7607153 GAATTGGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.69, C:0.07, G:0.17, T:0.07
Consensus pattern (15 bp):
TGAGAAAGCAAAAAA
Found at i:7610731 original size:17 final size:16
Alignment explanation
Indices: 7610709--7610740 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
7610699 AAATAAAAAT
7610709 AAAAAAAGCTTTTTTTA
1 AAAAAAAG-TTTTTTTA
7610726 AAAAAAAGTTTTTTT
1 AAAAAAAGTTTTTTT
7610741 GGGGGGGGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (16 bp):
AAAAAAAGTTTTTTTA
Found at i:7619254 original size:22 final size:22
Alignment explanation
Indices: 7619229--7619271 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
7619219 TAATTTTAAG
7619229 TTTAGATT-TGTACTAATTATTA
1 TTTAGATTATGT-CTAATTATTA
**
7619251 TTTATTTTATGTCTAATTATT
1 TTTAGATTATGTCTAATTATT
7619272 GTAATGCATA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.28, C:0.05, G:0.07, T:0.60
Consensus pattern (22 bp):
TTTAGATTATGTCTAATTATTA
Found at i:7620048 original size:19 final size:19
Alignment explanation
Indices: 7620026--7620063 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
7620016 AAAATTGTAG
7620026 AAAAATA-TTAAAAAATAT
1 AAAAATATTTAAAAAATAT
*
7620044 AAAAATATTTAAAATATAT
1 AAAAATATTTAAAAAATAT
7620063 A
1 A
7620064 TAATTGTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
AAAAATATTTAAAAAATAT
Found at i:7620161 original size:20 final size:19
Alignment explanation
Indices: 7620128--7620168 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
7620118 TTTTAAAATT
7620128 ATAAAAAAATTTATTAAAA
1 ATAAAAAAATTTATTAAAA
* *
7620147 ATAACAAAATATTATTTAAA
1 ATAAAAAAAT-TTATTAAAA
7620167 AT
1 AT
7620169 TTTTAAAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (19 bp):
ATAAAAAAATTTATTAAAA
Found at i:7620449 original size:20 final size:21
Alignment explanation
Indices: 7620424--7620474 Score: 79
Period size: 20 Copynumber: 2.5 Consensus size: 21
7620414 AATTCAAAAA
*
7620424 TTTTAAATAATT-TTTATATT
1 TTTTAAATAATTATTTACATT
7620444 TTTT-AATAATTATTTACATT
1 TTTTAAATAATTATTTACATT
7620464 TTTTAAATAAT
1 TTTTAAATAAT
7620475 CTGTACCTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 7 0.25
20 15 0.54
21 6 0.21
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTTAAATAATTATTTACATT
Found at i:7620451 original size:19 final size:20
Alignment explanation
Indices: 7620424--7620474 Score: 68
Period size: 19 Copynumber: 2.5 Consensus size: 20
7620414 AATTCAAAAA
* *
7620424 TTTTAAATAATT-TTTATAT
1 TTTTTAATAATTATTTACAT
7620443 TTTTTAATAATTATTTACAT
1 TTTTTAATAATTATTTACAT
7620463 TTTTTAAATAAT
1 TTTTT-AATAAT
7620475 CTGTACCTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 11 0.39
20 11 0.39
21 6 0.21
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTTTAATAATTATTTACAT
Found at i:7621416 original size:114 final size:114
Alignment explanation
Indices: 7621226--7621624 Score: 519
Period size: 114 Copynumber: 3.5 Consensus size: 114
7621216 CGTTTTTGAG
* * * * * *
7621226 AAAGCGCCGC-A-AAAAACCTAGCGCAACGACGCCGTTTCCCCAACATTC-GGTGATTTAGCGGC
1 AAAGCGCCGCTACAAAAAACTAGCGCAACGACGTCGTCTCCCGAGCTTTCAGG-GATTTAGCGGC
* * * *
7621288 G-TTTTTCAGT-AAGCGCCGCTAATGCTCAAGG-CTTTAGCGGCGTTTCTAGG-
65 GCTTTCT-A-TAAAGCGCCGCTAATGGT-TAGGTCTTTAGCAGCGTTTCT-GGA
* * *
7621338 AAAGCGCCGC-A-AAAATAACTAAGCTCAACGATGTCGTTTCCCGAGCTTTCAGGGATTTAGCGG
1 AAAGCGCCGCTACAAAA-AACT-AGCGCAACGACGTCGTCTCCCGAGCTTTCAGGGATTTAGCGG
7621401 CGCTTTCTATAAAGCGCCGCTAATGGTTAGGTCTTTAGCAGCGTTTCTGGA
64 CGCTTTCTATAAAGCGCCGCTAATGGTTAGGTCTTTAGCAGCGTTTCTGGA
**
7621452 AAAGCGCCGCTACTTAAAACTAGCGCAACGACGTCGTCTCCCGAGCTTTCAGGGATTTAGCGGCG
1 AAAGCGCCGCTACAAAAAACTAGCGCAACGACGTCGTCTCCCGAGCTTTCAGGGATTTAGCGGCG
7621517 CTTTCTATAAAGCGCCGCTAATGGTTAGGTCTTTAGCAGCGTTTCTGGA
66 CTTTCTATAAAGCGCCGCTAATGGTTAGGTCTTTAGCAGCGTTTCTGGA
**
7621566 AAAGCGCCGCTACTTAAAACTAGCGCAACGACGTCGTCTCCCGAGCTTTCAGGGATTTA
1 AAAGCGCCGCTACAAAAAACTAGCGCAACGACGTCGTCTCCCGAGCTTTCAGGGATTTA
7621625 AGGGATTTTA
Statistics
Matches: 262, Mismatches: 16, Indels: 16
0.89 0.05 0.05
Matches are distributed among these distances:
112 15 0.06
113 9 0.03
114 225 0.86
115 11 0.04
116 2 0.01
ACGTcount: A:0.25, C:0.26, G:0.25, T:0.25
Consensus pattern (114 bp):
AAAGCGCCGCTACAAAAAACTAGCGCAACGACGTCGTCTCCCGAGCTTTCAGGGATTTAGCGGCG
CTTTCTATAAAGCGCCGCTAATGGTTAGGTCTTTAGCAGCGTTTCTGGA
Found at i:7652455 original size:4 final size:4
Alignment explanation
Indices: 7652446--7652478 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
7652436 TTATTATTTG
7652446 CTCC CTCC CTCC CTCC CTCC CTCC CTCC CTCC C
1 CTCC CTCC CTCC CTCC CTCC CTCC CTCC CTCC C
7652479 AATCATAGAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.00, C:0.76, G:0.00, T:0.24
Consensus pattern (4 bp):
CTCC
Found at i:7658793 original size:188 final size:188
Alignment explanation
Indices: 7658476--7658849 Score: 732
Period size: 188 Copynumber: 2.0 Consensus size: 188
7658466 AAATTAAATT
7658476 ATATATTTTTACGATAGTAAAAATATAATTTCACCATTTTAATATCTATATTTTTATAATTTTTA
1 ATATATTTTTACGATAGTAAAAATATAATTTCACCATTTTAATATCTATATTTTTATAATTTTTA
7658541 AAGAATTAAATTAAAATTTTATCATTTTAAAGAGGAGTTAAAAATATAATTTTACCTTTATTAAT
66 AAGAATTAAATTAAAATTTTATCATTTTAAAGAGGAGTTAAAAATATAATTTTACCTTTATTAAT
7658606 TTAAATTTTTATAATTTTAAAGAGCGGTAAATGAAATTTTTTGGGGTCGAGCCTGCGA
131 TTAAATTTTTATAATTTTAAAGAGCGGTAAATGAAATTTTTTGGGGTCGAGCCTGCGA
7658664 ATATATTTTTACGATAGTAAAAATATAATTTCACCATTTTAATATCTATATTTTTATAATTTTTA
1 ATATATTTTTACGATAGTAAAAATATAATTTCACCATTTTAATATCTATATTTTTATAATTTTTA
7658729 AAGAATTAAAATTAAAA-TTTATCATTTTAAAGAGGAGTTAAAAATATAATTTTACCTTTATTAA
66 AAGAATT-AAATTAAAATTTTATCATTTTAAAGAGGAGTTAAAAATATAATTTTACCTTTATTAA
7658793 TTTAAATTTTTATAATTTTAAAGAGCGGTAAATGAAATTTTTTGGGGTCGAGCCTGC
130 TTTAAATTTTTATAATTTTAAAGAGCGGTAAATGAAATTTTTTGGGGTCGAGCCTGC
7658850 CAATCCCGAC
Statistics
Matches: 185, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
188 176 0.95
189 9 0.05
ACGTcount: A:0.39, C:0.07, G:0.10, T:0.44
Consensus pattern (188 bp):
ATATATTTTTACGATAGTAAAAATATAATTTCACCATTTTAATATCTATATTTTTATAATTTTTA
AAGAATTAAATTAAAATTTTATCATTTTAAAGAGGAGTTAAAAATATAATTTTACCTTTATTAAT
TTAAATTTTTATAATTTTAAAGAGCGGTAAATGAAATTTTTTGGGGTCGAGCCTGCGA
Found at i:7659826 original size:85 final size:84
Alignment explanation
Indices: 7659699--7659855 Score: 192
Period size: 85 Copynumber: 1.9 Consensus size: 84
7659689 TTGTAATGCA
* * * * *
7659699 TATTTTTATAACTTGAAATAAAGAATAAATGCATGCTTTATTTGTAAAAAGAAACTAAATAAACT
1 TATTTTTATAACTTGAAATAAAGAAAAAATGCATGATCTATTTGTAAAAAGAAACTAAACAAAAT
7659764 TGCACAAGAGTGAAATTAT
66 TGCACAAGAGTGAAATTAT
* * * *
7659783 TATTTTT-TAACTCT-AAATAAAGGAAAAAAATGCATTATCTATTTTTTAAAAGAAACTAGACAA
1 TATTTTTATAACT-TGAAATAAA-G-AAAAAATGCATGATCTATTTGTAAAAAGAAACTAAACAA
7659846 AATTGCACAA
63 AATTGCACAA
7659856 ATTACTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
83 12 0.20
84 9 0.15
85 40 0.66
ACGTcount: A:0.47, C:0.10, G:0.10, T:0.33
Consensus pattern (84 bp):
TATTTTTATAACTTGAAATAAAGAAAAAATGCATGATCTATTTGTAAAAAGAAACTAAACAAAAT
TGCACAAGAGTGAAATTAT
Found at i:7661892 original size:16 final size:16
Alignment explanation
Indices: 7661871--7661901 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7661861 CAATTAGTGC
7661871 AAATCACGTAGACGTA
1 AAATCACGTAGACGTA
*
7661887 AAATCATGTAGACGT
1 AAATCACGTAGACGT
7661902 TGTTTCGGGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.16, G:0.19, T:0.23
Consensus pattern (16 bp):
AAATCACGTAGACGTA
Found at i:7681455 original size:6 final size:7
Alignment explanation
Indices: 7681433--7681468 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
7681423 GAGAATAATC
7681433 TCTATTT
1 TCTATTT
7681440 TCTATTT
1 TCTATTT
7681447 TCT-TTT
1 TCTATTT
7681453 TCT-TTT
1 TCTATTT
7681459 TCTATTT
1 TCTATTT
7681466 TCT
1 TCT
7681469 GAAAATTGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 12 0.43
7 16 0.57
ACGTcount: A:0.08, C:0.17, G:0.00, T:0.75
Consensus pattern (7 bp):
TCTATTT
Found at i:7682997 original size:88 final size:88
Alignment explanation
Indices: 7682849--7683033 Score: 248
Period size: 87 Copynumber: 2.1 Consensus size: 88
7682839 TCCTCAATTT
7682849 AAAAAAAAAACAATTAAGCTCTTTTTTTTTTACACTCAGTTGAGTATTAAACTTTCAAAATACAC
1 AAAAAAAAAACAATTAAGCTCTTTTTTTTTTACACTCAGTTGAGTATTAAACTTTCAAAATACAC
*
7682914 CAAAAAAGCCTTCAAAC-TTTTC
66 CAAAAAAGCCCTCAAACTTTTTC
* * * * * **
7682936 AAAAAAAAAGCCATTAAGC-CTTTTTTTTTTTGCACTCATTTGGGTACTTAAACTTTCAAAATGT
1 AAAAAAAAAACAATTAAGCTC-TTTTTTTTTTACACTCAGTTGAGTA-TTAAACTTTCAAAATAC
* *
7683000 ATCAAAAAGGCCCTCAAACTTTTTC
64 ACCAAAAAAGCCCTCAAACTTTTTC
7683025 AAAAAAAAA
1 AAAAAAAAA
7683034 TTAAGCCCCT
Statistics
Matches: 85, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
86 1 0.01
87 39 0.46
88 31 0.36
89 14 0.16
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.33
Consensus pattern (88 bp):
AAAAAAAAAACAATTAAGCTCTTTTTTTTTTACACTCAGTTGAGTATTAAACTTTCAAAATACAC
CAAAAAAGCCCTCAAACTTTTTC
Found at i:7683084 original size:86 final size:85
Alignment explanation
Indices: 7682850--7683094 Score: 266
Period size: 86 Copynumber: 2.8 Consensus size: 85
7682840 CCTCAATTTA
* * * * *
7682850 AAAAAAAAACAATTAAGCTCTTTTTTTTTTACACTCAGTTGAGTA-TTAAACTTTCAAAATACAC
1 AAAAAAAAAC-ATTAAGC-CTTTTTTTTTTTCACTCAATTGGGTACTTAAACTTTCAAAATGCAT
* *
7682914 CAAAAAAGCCTTCAAACTTTTC
64 CAAAAAGGCCCTCAAACTTTTC
* *
7682936 AAAAAAAAAGCCATTAAGCCTTTTTTTTTTTGCACTCATTTGGGTACTTAAACTTTCAAAATGTA
1 AAAAAAAAA--CATTAAGCCTTTTTTTTTTT-CACTCAATTGGGTACTTAAACTTTCAAAATGCA
7683001 TCAAAAAGGCCCTCAAACTTTTTC
63 TCAAAAAGGCCCTCAAAC-TTTTC
*
7683025 -AAAAAAAA-ATTAAGCCCCTGTTTTTTTTTT-ACTCAATTGGGTACTTGAA-TTGTCAAAATGC
1 AAAAAAAAACATTAAG--CCT-TTTTTTTTTTCACTCAATTGGGTACTTAAACTT-TCAAAATGC
*
7683086 ATTAAAAAG
62 ATCAAAAAG
7683095 ACCATTTGAC
Statistics
Matches: 138, Mismatches: 12, Indels: 18
0.82 0.07 0.11
Matches are distributed among these distances:
85 8 0.06
86 53 0.38
87 22 0.16
88 50 0.36
89 5 0.04
ACGTcount: A:0.38, C:0.17, G:0.09, T:0.35
Consensus pattern (85 bp):
AAAAAAAAACATTAAGCCTTTTTTTTTTTCACTCAATTGGGTACTTAAACTTTCAAAATGCATCA
AAAAGGCCCTCAAACTTTTC
Found at i:7683257 original size:20 final size:20
Alignment explanation
Indices: 7683199--7683257 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
7683189 GACAAAAAAA
7683199 TTAATAAAAAAATCAATAAA-T
1 TTAAT-AAAAAAT-AATAAATT
* *
7683220 TT-ATAAAAATTATTAAATT
1 TTAATAAAAAATAATAAATT
*
7683239 TTAATAAAAAATAAAAAAT
1 TTAATAAAAAATAATAAAT
7683258 AAGAAAAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
18 5 0.16
19 9 0.29
20 15 0.48
21 2 0.06
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (20 bp):
TTAATAAAAAATAATAAATT
Found at i:7683329 original size:19 final size:19
Alignment explanation
Indices: 7683307--7683345 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
7683297 TTGTGAATTT
7683307 TTATACAAAT-AATAAAAAA
1 TTATA-AAATGAATAAAAAA
*
7683326 TTATAAAATGCATAAAAAA
1 TTATAAAATGAATAAAAAA
7683345 T
1 T
7683346 AACCTTTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.64, C:0.05, G:0.03, T:0.28
Consensus pattern (19 bp):
TTATAAAATGAATAAAAAA
Found at i:7685957 original size:2 final size:2
Alignment explanation
Indices: 7685950--7685978 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
7685940 ATGGAGTTTA
7685950 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
7685979 AGAAGAAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:7689541 original size:35 final size:35
Alignment explanation
Indices: 7689501--7689567 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
7689491 TTTGTGTTTG
*
7689501 ATCTTTTCAATTTCTTCTTTATTTTACTTTTCTTA
1 ATCTTTTCAATTTCTTCTTTATTTTACCTTTCTTA
*
7689536 ATCTTTTCAATTTTTTCTTTATTTTACCTTTC
1 ATCTTTTCAATTTCTTCTTTATTTTACCTTTC
7689568 ATTACTTACA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.16, C:0.18, G:0.00, T:0.66
Consensus pattern (35 bp):
ATCTTTTCAATTTCTTCTTTATTTTACCTTTCTTA
Found at i:7695441 original size:39 final size:39
Alignment explanation
Indices: 7695395--7695477 Score: 112
Period size: 39 Copynumber: 2.1 Consensus size: 39
7695385 CCACCGGCCA
* *
7695395 CCACCATCGTCATTCATCAGTCAGGCAGTCACCACCGGT
1 CCACCATCATCATTCACCAGTCAGGCAGTCACCACCGGT
** * *
7695434 CCACCATCATTGTTCACCAGTCAGGTAGTCACCATCGGT
1 CCACCATCATCATTCACCAGTCAGGCAGTCACCACCGGT
7695473 CCACC
1 CCACC
7695478 CGTCAATCTC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.23, C:0.39, G:0.17, T:0.22
Consensus pattern (39 bp):
CCACCATCATCATTCACCAGTCAGGCAGTCACCACCGGT
Found at i:7708842 original size:27 final size:27
Alignment explanation
Indices: 7708811--7708909 Score: 110
Period size: 27 Copynumber: 3.7 Consensus size: 27
7708801 CTAGGTATGT
*
7708811 CGCCTATCAGATATGCACTACCAGTGC
1 CGCCTATCAGATAGGCACTACCAGTGC
* * *
7708838 GGCCTTTCAGATAGGCACTACTAGTGC
1 CGCCTATCAGATAGGCACTACCAGTGC
** * *
7708865 CGCCTATCAGATAGG-GGTCACTAGTGT
1 CGCCTATCAGATAGGCACT-ACCAGTGC
7708892 CGCCTATCAGATAGGCAC
1 CGCCTATCAGATAGGCAC
7708910 CACACCCCTA
Statistics
Matches: 59, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
26 1 0.02
27 58 0.98
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.23
Consensus pattern (27 bp):
CGCCTATCAGATAGGCACTACCAGTGC
Found at i:7740720 original size:11 final size:12
Alignment explanation
Indices: 7740687--7740721 Score: 56
Period size: 11 Copynumber: 3.1 Consensus size: 12
7740677 AAGACTTTCT
7740687 TACTTTTTTTT-
1 TACTTTTTTTTG
7740698 TACTTTTTTTTG
1 TACTTTTTTTTG
7740710 TA-TTTTTTTTG
1 TACTTTTTTTTG
7740721 T
1 T
7740722 TTGTTTTGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 21 0.91
12 2 0.09
ACGTcount: A:0.09, C:0.06, G:0.06, T:0.80
Consensus pattern (12 bp):
TACTTTTTTTTG
Found at i:7742727 original size:11 final size:11
Alignment explanation
Indices: 7742711--7742771 Score: 51
Period size: 11 Copynumber: 5.9 Consensus size: 11
7742701 GGCCCATTTT
7742711 TATTTTAAAAA
1 TATTTTAAAAA
7742722 TATTTT--AAA
1 TATTTTAAAAA
7742731 -A--TTAAAAA
1 TATTTTAAAAA
* **
7742739 AATTAAAAAAA
1 TATTTTAAAAA
7742750 GTATTTTAAAAA
1 -TATTTTAAAAA
7742762 TATTTTAAAA
1 TATTTTAAAA
7742772 TTAAAAAANN
Statistics
Matches: 39, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
6 2 0.05
8 4 0.10
9 4 0.10
11 21 0.54
12 8 0.21
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:7743697 original size:18 final size:17
Alignment explanation
Indices: 7743664--7743698 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
7743654 ATTAAAATTA
*
7743664 ATTAAAAATTAGAAAAT
1 ATTAAAAATTAAAAAAT
7743681 ATTAAAATATTAAAAAAT
1 ATTAAAA-ATTAAAAAAT
7743699 TATATAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (17 bp):
ATTAAAAATTAAAAAAT
Found at i:7743730 original size:26 final size:26
Alignment explanation
Indices: 7743652--7743758 Score: 81
Period size: 26 Copynumber: 4.0 Consensus size: 26
7743642 ACGTCAAAAG
* * *
7743652 TTATTAAAATTAATTAAAAATTAGAAA
1 TTATGAAAA-TAATAAAAAATTATAAA
* * *
7743679 ATATTAAAATATTAAAAAATTATATAAA
1 TTATGAAAATAATAAAAAA-T-TATAAA
*
7743707 TTATGAACATAATAAAAAATTATAAA
1 TTATGAAAATAATAAAAAATTATAAA
* * *
7743733 TTAAGAAAAATATTTAAAAA-TATAAA
1 TTATG-AAAATAATAAAAAATTATAAA
7743759 ATANNNNNNN
Statistics
Matches: 65, Mismatches: 12, Indels: 7
0.77 0.14 0.08
Matches are distributed among these distances:
26 24 0.37
27 21 0.32
28 20 0.31
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.34
Consensus pattern (26 bp):
TTATGAAAATAATAAAAAATTATAAA
Found at i:7743750 original size:28 final size:28
Alignment explanation
Indices: 7743684--7743760 Score: 81
Period size: 27 Copynumber: 2.9 Consensus size: 28
7743674 AGAAAATATT
*
7743684 AAAATATTAAAAAATTATATAAATTATG
1 AAAATATTAAAAAATTATATAAATTAAG
* *
7743712 AACATAATAAAAAA-T-TATAAATTAAG
1 AAAATATTAAAAAATTATATAAATTAAG
*
7743738 AAAAATATTTAAAAA-TATA-AAAT
1 -AAAATATTAAAAAATTATATAAAT
7743761 ANNNNNNNNN
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
26 10 0.24
27 17 0.41
28 14 0.34
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (28 bp):
AAAATATTAAAAAATTATATAAATTAAG
Found at i:7744417 original size:11 final size:12
Alignment explanation
Indices: 7744393--7744422 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
7744383 TTAAAAATAT
7744393 AAAATATTATTA
1 AAAATATTATTA
7744405 AAAATATTA-TA
1 AAAATATTATTA
7744416 AAAATAT
1 AAAATAT
7744423 AGAAATGTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 9 0.50
12 9 0.50
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
AAAATATTATTA
Found at i:7744978 original size:18 final size:18
Alignment explanation
Indices: 7744957--7745050 Score: 70
Period size: 18 Copynumber: 5.2 Consensus size: 18
7744947 TCATTAATAT
7744957 TTTTAATAATTTTTACAA
1 TTTTAATAATTTTTACAA
* * **
7744975 TTTTCATATTTTTTTGTAA
1 TTTTAATA-ATTTTTACAA
*
7744994 TTTATAA-AATTTTTA-AT
1 TTT-TAATAATTTTTACAA
7745011 TTTTAAT-ATTTTTACAAA
1 TTTTAATAATTTTTAC-AA
*
7745029 TTTT-ATAATTTATACAA
1 TTTTAATAATTTTTACAA
7745046 CTTTT
1 -TTTT
7745051 TTGTCATTTA
Statistics
Matches: 59, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
16 10 0.17
17 8 0.14
18 28 0.47
19 11 0.19
20 2 0.03
ACGTcount: A:0.34, C:0.05, G:0.01, T:0.60
Consensus pattern (18 bp):
TTTTAATAATTTTTACAA
Found at i:7745012 original size:16 final size:16
Alignment explanation
Indices: 7744986--7745024 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
7744976 TTTCATATTT
7744986 TTTTGTAATTTATAAAA
1 TTTT-TAATTTATAAAA
* *
7745003 TTTTTAATTTTTAATA
1 TTTTTAATTTATAAAA
7745019 TTTTTA
1 TTTTTA
7745025 CAAATTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (16 bp):
TTTTTAATTTATAAAA
Found at i:7745052 original size:20 final size:21
Alignment explanation
Indices: 7745029--7745074 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
7745019 TTTTTACAAA
7745029 TTTTATAATTTAT-ACAACTT
1 TTTTATAATTTATAACAACTT
* * *
7745049 TTTTGTCATTTATAATAACTT
1 TTTTATAATTTATAACAACTT
7745070 TTTTA
1 TTTTA
7745075 ATTTTTGTGG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.59
Consensus pattern (21 bp):
TTTTATAATTTATAACAACTT
Found at i:7751309 original size:15 final size:15
Alignment explanation
Indices: 7751289--7751318 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7751279 TTTTTTCTAC
*
7751289 TTCTTTTTATTTTAT
1 TTCTTTTAATTTTAT
7751304 TTCTTTTAATTTTAT
1 TTCTTTTAATTTTAT
7751319 CCTTTAAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.77
Consensus pattern (15 bp):
TTCTTTTAATTTTAT
Found at i:7751444 original size:15 final size:15
Alignment explanation
Indices: 7751424--7751452 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
7751414 TTTTTATACT
7751424 AAGACTTAATTTTTC
1 AAGACTTAATTTTTC
7751439 AAGACTTAATTTTT
1 AAGACTTAATTTTT
7751453 GTAGGGGACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.10, G:0.07, T:0.48
Consensus pattern (15 bp):
AAGACTTAATTTTTC
Found at i:7754865 original size:22 final size:23
Alignment explanation
Indices: 7754840--7754884 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
7754830 TTTTTTTTTC
*
7754840 AAACTATGCATT-TTAATTTAAT
1 AAACTATGCATTATTAATATAAT
* *
7754862 AAACTTTTCATTATTAATATAAT
1 AAACTATGCATTATTAATATAAT
7754885 TAATTATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.42, C:0.09, G:0.02, T:0.47
Consensus pattern (23 bp):
AAACTATGCATTATTAATATAAT
Found at i:7759724 original size:3 final size:3
Alignment explanation
Indices: 7759716--7759756 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
7759706 AAAATTAGTT
7759716 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
7759757 GGATATATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:7761444 original size:12 final size:12
Alignment explanation
Indices: 7761427--7761457 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
7761417 GGTAGGCAAC
7761427 TTTTTTTTGCGG
1 TTTTTTTTGCGG
7761439 TTTTTTTTGCGG
1 TTTTTTTTGCGG
*
7761451 TTCTTTT
1 TTTTTTT
7761458 GCACTTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.10, G:0.19, T:0.71
Consensus pattern (12 bp):
TTTTTTTTGCGG
Found at i:7762049 original size:31 final size:32
Alignment explanation
Indices: 7761990--7762128 Score: 219
Period size: 31 Copynumber: 4.4 Consensus size: 32
7761980 GGCAAATTAC
*
7761990 AAGAGTAATTGAATCATAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
*
7762022 AAGAGTAATTGAATCCTAAT-AAAACTCTTTC
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
*
7762053 AAGAATAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
*
7762085 AAGAGTAATTGAATCCTAAT-AAAACTCTTTC
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
*
7762116 AAGAATAATTGAA
1 AAGAGTAATTGAA
7762129 CCACCAATTT
Statistics
Matches: 99, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
31 51 0.52
32 48 0.48
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.31
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:7762088 original size:63 final size:63
Alignment explanation
Indices: 7761989--7762128 Score: 262
Period size: 63 Copynumber: 2.2 Consensus size: 63
7761979 AGGCAAATTA
*
7761989 CAAGAGTAATTGAATCATAATAAAAACTCTTTAAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAATAATTGAATCATAATAAAAACTCTTTAAAGAGTAATTGAATCCTAATAAAACTCTTT
*
7762052 CAAGAATAATTGAATCCTAATAAAAACTCTTTAAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAATAATTGAATCATAATAAAAACTCTTTAAAGAGTAATTGAATCCTAATAAAACTCTTT
7762115 CAAGAATAATTGAA
1 CAAGAATAATTGAA
7762129 CCACCAATTT
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 75 1.00
ACGTcount: A:0.47, C:0.13, G:0.09, T:0.31
Consensus pattern (63 bp):
CAAGAATAATTGAATCATAATAAAAACTCTTTAAAGAGTAATTGAATCCTAATAAAACTCTTT
Found at i:7762806 original size:18 final size:17
Alignment explanation
Indices: 7762784--7762826 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
7762774 TGAAATCGAG
*
7762784 TAATTAATTGAA-TTAA
1 TAATTAATCGAACTTAA
7762800 CTAAATTAATCGAACTTAA
1 -T-AATTAATCGAACTTAA
7762819 TAATTAAT
1 TAATTAAT
7762827 ATTATATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 8 0.35
18 11 0.48
19 4 0.17
ACGTcount: A:0.49, C:0.07, G:0.05, T:0.40
Consensus pattern (17 bp):
TAATTAATCGAACTTAA
Found at i:7775310 original size:15 final size:15
Alignment explanation
Indices: 7775290--7775322 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
7775280 ATCTCTAAGT
7775290 TTTTATACTTTAAAA
1 TTTTATACTTTAAAA
*
7775305 TTTTATATTTTAAAA
1 TTTTATACTTTAAAA
7775320 TTT
1 TTT
7775323 GAATTCAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (15 bp):
TTTTATACTTTAAAA
Found at i:7780848 original size:27 final size:27
Alignment explanation
Indices: 7780817--7780872 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
7780807 AATGTCTGGT
7780817 ACACTAGAGCTAGCAATATAAGTTCTA
1 ACACTAGAGCTAGCAATATAAGTTCTA
7780844 ACACTAGAGCTAGCAATATAAGTTCTA
1 ACACTAGAGCTAGCAATATAAGTTCTA
7780871 AC
1 AC
7780873 TGCTAATAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.41, C:0.20, G:0.14, T:0.25
Consensus pattern (27 bp):
ACACTAGAGCTAGCAATATAAGTTCTA
Found at i:7782533 original size:49 final size:49
Alignment explanation
Indices: 7782468--7782568 Score: 184
Period size: 49 Copynumber: 2.1 Consensus size: 49
7782458 GAACCATGTC
*
7782468 TCAGTTCATTGGCAAGGAAACATAAAAATAAATGATACGGTTAACCACA
1 TCAGTTCATTGGCAAGGAAACATAAAAATAAATGATAAGGTTAACCACA
*
7782517 TCAGTTCATTGGCAAGGAAACTTAAAAATAAATGATAAGGTTAACCACA
1 TCAGTTCATTGGCAAGGAAACATAAAAATAAATGATAAGGTTAACCACA
7782566 TCA
1 TCA
7782569 CATAATCTGC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.45, C:0.16, G:0.16, T:0.24
Consensus pattern (49 bp):
TCAGTTCATTGGCAAGGAAACATAAAAATAAATGATAAGGTTAACCACA
Found at i:7783990 original size:79 final size:80
Alignment explanation
Indices: 7783890--7784052 Score: 303
Period size: 79 Copynumber: 2.1 Consensus size: 80
7783880 ACATTAAAAT
7783890 AAAT-ATTTTCCAACAAATTGAAAATAAATTTAAAACAATAGGTACTTAACATAAATATAACTTA
1 AAATAATTTTCCAACAAATTGAAAATAAATTTAAAACAATAGGTACTTAACATAAATATAACTTA
7783954 ACAAGCAAATGTGGA
66 ACAAGCAAATGTGGA
*
7783969 AAATAATTTTCCAAC-AATTGAAAATAAATTTAAAACAATAGTTACTTAACATAAATATAACTTA
1 AAATAATTTTCCAACAAATTGAAAATAAATTTAAAACAATAGGTACTTAACATAAATATAACTTA
7784033 ACAAGCAAATGTGGA
66 ACAAGCAAATGTGGA
7784048 AAATA
1 AAATA
7784053 GTAACAAAAT
Statistics
Matches: 82, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
79 72 0.88
80 10 0.12
ACGTcount: A:0.53, C:0.11, G:0.08, T:0.28
Consensus pattern (80 bp):
AAATAATTTTCCAACAAATTGAAAATAAATTTAAAACAATAGGTACTTAACATAAATATAACTTA
ACAAGCAAATGTGGA
Found at i:7784005 original size:21 final size:21
Alignment explanation
Indices: 7783967--7784007 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
7783957 AGCAAATGTG
* **
7783967 GAAAATAATTTTCCAACAATT
1 GAAAATAAATTTAAAACAATT
7783988 GAAAATAAATTTAAAACAAT
1 GAAAATAAATTTAAAACAAT
7784008 AGTTACTTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.56, C:0.10, G:0.05, T:0.29
Consensus pattern (21 bp):
GAAAATAAATTTAAAACAATT
Found at i:7793548 original size:2 final size:2
Alignment explanation
Indices: 7793541--7793566 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7793531 TATTATTAGC
7793541 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
7793567 ATTTTTTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:7802119 original size:3 final size:3
Alignment explanation
Indices: 7802111--7802135 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
7802101 CTTTACACTC
7802111 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
7802136 ATATTTTTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:7813651 original size:1 final size:1
Alignment explanation
Indices: 7813647--7813677 Score: 53
Period size: 1 Copynumber: 31.0 Consensus size: 1
7813637 TTTTTTTTTT
*
7813647 GGGGGGGGGGGGGGGGGGGGGGGTGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
7813678 CAAANNNNNN
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.97, T:0.03
Consensus pattern (1 bp):
G
Found at i:7816892 original size:27 final size:28
Alignment explanation
Indices: 7816841--7816921 Score: 78
Period size: 27 Copynumber: 2.9 Consensus size: 28
7816831 TTGGAATATT
* *
7816841 TAATAATTATTAATTAT-TTTATAATTTG
1 TAAT-ATTGTTAATAATATTTATAATTTG
*
7816869 T-ATATT-TTAATAATCATTTATAATTTT
1 TAATATTGTTAATAAT-ATTTATAATTTG
*
7816896 TACATCTTGTTAATAATATTTATAAT
1 TA-ATATTGTTAATAATATTTATAAT
7816922 ATTAATGAGT
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
25 7 0.16
26 3 0.07
27 13 0.29
28 1 0.02
29 13 0.29
30 8 0.18
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (28 bp):
TAATATTGTTAATAATATTTATAATTTG
Found at i:7820648 original size:6 final size:6
Alignment explanation
Indices: 7820549--7820667 Score: 123
Period size: 6 Copynumber: 19.8 Consensus size: 6
7820539 AAGCGGTAGT
* * * * * * * *
7820549 AGGAGT AGGAGT AGGAGT AGGAGT AGCAGC ACGAGT AGGAGC AGGTGC
1 AGGAGC AGGAGC AGGAGC AGGAGC AGGAGC AGGAGC AGGAGC AGGAGC
*
7820597 A-GATGC AGGTGC AGGAGC AGGAGC AGGAGC AGGAGC AGGAGC AGGAGC
1 AGGA-GC AGGAGC AGGAGC AGGAGC AGGAGC AGGAGC AGGAGC AGGAGC
* *
7820645 AGGAGC ACGAGC AGGAGC CGGAG
1 AGGAGC AGGAGC AGGAGC AGGAG
7820668 TCGAAGCCGG
Statistics
Matches: 97, Mismatches: 14, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
5 1 0.01
6 95 0.98
7 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.47, T:0.07
Consensus pattern (6 bp):
AGGAGC
Found at i:7821521 original size:10 final size:9
Alignment explanation
Indices: 7821493--7821629 Score: 73
Period size: 10 Copynumber: 14.4 Consensus size: 9
7821483 CTAATTTTGT
7821493 AAAATTATA
1 AAAATTATA
7821502 AAAA-TATA
1 AAAATTATA
7821510 AAAATTTATA
1 AAAA-TTATA
*
7821520 AAAATGATTA
1 AAAATTA-TA
*
7821530 AATATTAATA
1 AAAATT-ATA
7821540 AAAA-TATTA
1 AAAATTA-TA
7821549 AAGAA-TATTA
1 AA-AATTA-TA
*
7821559 AAAATTAGA
1 AAAATTATA
*
7821568 AAAAATATA
1 AAAATTATA
* *
7821577 AATATTGTAA
1 AAAATTAT-A
* *
7821587 AAAATAAAA
1 AAAATTATA
7821596 AAAATTTTATA
1 AAAA--TTATA
*
7821607 AAATTTTATA
1 AAA-ATTATA
*
7821617 AAAAGTATA
1 AAAATTATA
7821626 AAAA
1 AAAA
7821630 AATTATGAAA
Statistics
Matches: 98, Mismatches: 19, Indels: 22
0.71 0.14 0.16
Matches are distributed among these distances:
8 9 0.09
9 39 0.40
10 43 0.44
11 7 0.07
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (9 bp):
AAAATTATA
Found at i:7821548 original size:19 final size:19
Alignment explanation
Indices: 7821493--7821563 Score: 76
Period size: 19 Copynumber: 3.8 Consensus size: 19
7821483 CTAATTTTGT
7821493 AAAATT-ATAAAAATA-TA
1 AAAATTAATAAAAATATTA
*
7821510 AAAATTTATAAAAATGATTA
1 AAAATTAATAAAAAT-ATTA
*
7821530 AATATTAATAAAAATATTA
1 AAAATTAATAAAAATATTA
*
7821549 AAGAA-TATTAAAAAT
1 AA-AATTAATAAAAAT
7821564 TAGAAAAAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
17 6 0.13
18 8 0.17
19 16 0.35
20 16 0.35
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (19 bp):
AAAATTAATAAAAATATTA
Found at i:7821550 original size:29 final size:31
Alignment explanation
Indices: 7821507--7821576 Score: 85
Period size: 29 Copynumber: 2.4 Consensus size: 31
7821497 TTATAAAAAT
* *
7821507 ATAAAAATTTATAAA-AATGATTAAATATTA-
1 ATAAAAATATATAAAGAAT-ATTAAAAATTAG
7821537 ATAAAAATAT-TAAAGAATATTAAAAATTAG
1 ATAAAAATATATAAAGAATATTAAAAATTAG
7821567 A-AAAAATATA
1 ATAAAAATATA
7821577 AATATTGTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
29 22 0.63
30 13 0.37
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.31
Consensus pattern (31 bp):
ATAAAAATATATAAAGAATATTAAAAATTAG
Found at i:7821578 original size:18 final size:18
Alignment explanation
Indices: 7821537--7821597 Score: 56
Period size: 18 Copynumber: 3.4 Consensus size: 18
7821527 TTAAATATTA
*
7821537 ATAAAAATAT-TAAAGAAT
1 ATAAAAAT-TGTAAAAAAT
7821555 ATTAAAAATTAG-AAAAAAT
1 A-TAAAAATT-GTAAAAAAT
*
7821574 ATAAATATTGTAAAAAAT
1 ATAAAAATTGTAAAAAAT
7821592 A-AAAAA
1 ATAAAAA
7821598 AATTTTATAA
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
17 5 0.14
18 17 0.47
19 14 0.39
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (18 bp):
ATAAAAATTGTAAAAAAT
Found at i:7821635 original size:20 final size:20
Alignment explanation
Indices: 7821612--7821652 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
7821602 TTATAAAATT
*
7821612 TTATAAAAAGTATAAAAAAA
1 TTATAAAAAGCATAAAAAAA
* *
7821632 TTATGAAATGCATAAAAAAA
1 TTATAAAAAGCATAAAAAAA
7821652 T
1 T
7821653 CCTTTAATCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.27
Consensus pattern (20 bp):
TTATAAAAAGCATAAAAAAA
Found at i:7821934 original size:19 final size:19
Alignment explanation
Indices: 7821912--7821965 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 19
7821902 TTTTCTATAT
*
7821912 TTTTACTACTTTTATAAAA
1 TTTTACTATTTTTATAAAA
* *
7821931 TTTTACAATTTTTATAATA
1 TTTTACTATTTTTATAAAA
*
7821950 -TTTAATATTTTTATAA
1 TTTTACTATTTTTATAA
7821966 CTTTTATAAC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 14 0.47
19 16 0.53
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTTACTATTTTTATAAAA
Found at i:7821953 original size:18 final size:19
Alignment explanation
Indices: 7821882--7821965 Score: 64
Period size: 19 Copynumber: 4.4 Consensus size: 19
7821872 TTTTCTCGAC
*
7821882 TTTATAAAATTTTATAATTTT
1 TTTATAAAA-TTT-TAATATT
* * * * *
7821903 TTTCTATATTTTTACTACT
1 TTTATAAAATTTTAATATT
7821922 TTTATAAAATTTTACA-ATT
1 TTTATAAAATTTTA-ATATT
*
7821941 TTTATAATA-TTTAATATT
1 TTTATAAAATTTTAATATT
7821959 TTTATAA
1 TTTATAA
7821966 CTTTTATAAC
Statistics
Matches: 49, Mismatches: 12, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
17 1 0.02
18 14 0.29
19 25 0.51
20 3 0.06
21 6 0.12
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTATAAAATTTTAATATT
Found at i:7821961 original size:27 final size:26
Alignment explanation
Indices: 7821931--7821996 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 26
7821921 TTTTATAAAA
*
7821931 TTTTACAATTTTTATAA-TATTTAATAT
1 TTTTATAATTTTTATAACTATTT-A-AT
* *
7821958 TTTTATAACTTTTATAACTGTTTAAT
1 TTTTATAATTTTTATAACTATTTAAT
7821984 TTTTATAATTTTT
1 TTTTATAATTTTT
7821997 GCCACATGTC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
26 14 0.41
27 16 0.47
28 4 0.12
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.62
Consensus pattern (26 bp):
TTTTATAATTTTTATAACTATTTAAT
Found at i:7824433 original size:13 final size:13
Alignment explanation
Indices: 7824417--7824441 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7824407 CAAACACAAA
7824417 AAAATAAGAAAAT
1 AAAATAAGAAAAT
7824430 AAAATAAGAAAA
1 AAAATAAGAAAA
7824442 ACACAAGAAC
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:0.80, C:0.00, G:0.08, T:0.12
Consensus pattern (13 bp):
AAAATAAGAAAAT
Found at i:7831420 original size:20 final size:20
Alignment explanation
Indices: 7831395--7831464 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 20
7831385 AAAGATGTAT
7831395 ATATATAATAAGATATAAAA
1 ATATATAATAAGATATAAAA
* *
7831415 ATATATATATGTAGATA-AAGAT
1 ATATATA-AT-AAGATATAA-AA
*
7831437 ATATATAATAAGATCTAAAA
1 ATATATAATAAGATATAAAA
7831457 TATATATA
1 -ATATATA
7831465 TATGTATGAA
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
20 12 0.30
21 15 0.38
22 13 0.32
ACGTcount: A:0.57, C:0.01, G:0.07, T:0.34
Consensus pattern (20 bp):
ATATATAATAAGATATAAAA
Found at i:7831435 original size:28 final size:26
Alignment explanation
Indices: 7831382--7831439 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
7831372 AAAATACGTG
* *
7831382 TATAAAGATGTATATATATAATAAGA
1 TATAAAAATATATATATATAATAAGA
*
7831408 TATAAAAATATATATATGTAGATAAAGA
1 TATAAAAATATATATATATA-AT-AAGA
7831436 TATA
1 TATA
7831440 TATAATAAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 17 0.63
27 2 0.07
28 8 0.30
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.34
Consensus pattern (26 bp):
TATAAAAATATATATATATAATAAGA
Found at i:7832670 original size:13 final size:13
Alignment explanation
Indices: 7832654--7832678 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7832644 CAAACACAAA
7832654 AAAATAAGAAAAT
1 AAAATAAGAAAAT
7832667 AAAATAAGAAAA
1 AAAATAAGAAAA
7832679 ACACAAGAAC
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:0.80, C:0.00, G:0.08, T:0.12
Consensus pattern (13 bp):
AAAATAAGAAAAT
Found at i:7838931 original size:28 final size:28
Alignment explanation
Indices: 7838877--7838931 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
7838867 CAGATTAGGA
**
7838877 AAAAAAAGTCAAATTTAAATATTAAATT
1 AAAAAAAGTCAAATTTAAATACCAAATT
*
7838905 AAAAAATGTCAAA-TTAAAGTACCAAAT
1 AAAAAAAGTCAAATTTAAA-TACCAAAT
7838932 GTTATATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.60, C:0.07, G:0.05, T:0.27
Consensus pattern (28 bp):
AAAAAAAGTCAAATTTAAATACCAAATT
Found at i:7841050 original size:3 final size:3
Alignment explanation
Indices: 7841042--7841071 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
7841032 GCACCCTTTT
7841042 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
7841072 TTTGTACTAG
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:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
ATC
Found at i:7841630 original size:10 final size:10
Alignment explanation
Indices: 7841600--7841630 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
7841590 GCAATAATAT
7841600 GCACTAAAAA
1 GCACTAAAAA
*
7841610 ACACTAAAAA
1 GCACTAAAAA
7841620 GCACTAAAAA
1 GCACTAAAAA
7841630 G
1 G
7841631 GTCTTTAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.61, C:0.19, G:0.10, T:0.10
Consensus pattern (10 bp):
GCACTAAAAA
Found at i:7842377 original size:23 final size:23
Alignment explanation
Indices: 7842351--7842394 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
7842341 AAAGTCACGT
*
7842351 AATTTTCATAACATCATTAATCA
1 AATTTTCATAACACCATTAATCA
7842374 AATTTTCATAACACCATTAAT
1 AATTTTCATAACACCATTAAT
7842395 GTTAGGTGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.43, C:0.18, G:0.00, T:0.39
Consensus pattern (23 bp):
AATTTTCATAACACCATTAATCA
Found at i:7847864 original size:18 final size:20
Alignment explanation
Indices: 7847833--7847869 Score: 51
Period size: 18 Copynumber: 1.9 Consensus size: 20
7847823 ACCTGGCCTG
*
7847833 TAATGCTCTTTTTC-TTCTC
1 TAATGCTCTGTTTCATTCTC
7847852 TAAT-CTCTGTTTCATTCT
1 TAATGCTCTGTTTCATTCT
7847870 TTTCCTTTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.14, C:0.24, G:0.05, T:0.57
Consensus pattern (20 bp):
TAATGCTCTGTTTCATTCTC
Found at i:7850371 original size:36 final size:36
Alignment explanation
Indices: 7850324--7850400 Score: 136
Period size: 36 Copynumber: 2.1 Consensus size: 36
7850314 ATTCTTACCA
*
7850324 TTCATCTCGAGCAAATGGATATTTCATGTTTGATAT
1 TTCATATCGAGCAAATGGATATTTCATGTTTGATAT
*
7850360 TTCATATCGAGCAAATGGATATTTCATGTTTGGTAT
1 TTCATATCGAGCAAATGGATATTTCATGTTTGATAT
7850396 TTCAT
1 TTCAT
7850401 GTTTGATATT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.27, C:0.13, G:0.17, T:0.43
Consensus pattern (36 bp):
TTCATATCGAGCAAATGGATATTTCATGTTTGATAT
Found at i:7850398 original size:14 final size:14
Alignment explanation
Indices: 7850377--7850414 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
7850367 CGAGCAAATG
7850377 GATATTTCATGTTT
1 GATATTTCATGTTT
*
7850391 GGTATTTCATGTTT
1 GATATTTCATGTTT
7850405 GATATTTCAT
1 GATATTTCAT
7850415 CTCGAGCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.21, C:0.08, G:0.16, T:0.55
Consensus pattern (14 bp):
GATATTTCATGTTT
Found at i:7850420 original size:50 final size:50
Alignment explanation
Indices: 7850343--7850439 Score: 185
Period size: 50 Copynumber: 1.9 Consensus size: 50
7850333 AGCAAATGGA
7850343 TATTTCATGTTTGATATTTCATATCGAGCAAATGGATATTTCATGTTTGG
1 TATTTCATGTTTGATATTTCATATCGAGCAAATGGATATTTCATGTTTGG
*
7850393 TATTTCATGTTTGATATTTCATCTCGAGCAAATGGATATTTCATGTT
1 TATTTCATGTTTGATATTTCATATCGAGCAAATGGATATTTCATGTT
7850440 AAGAGTTAAG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.26, C:0.11, G:0.16, T:0.46
Consensus pattern (50 bp):
TATTTCATGTTTGATATTTCATATCGAGCAAATGGATATTTCATGTTTGG
Found at i:7853525 original size:5 final size:5
Alignment explanation
Indices: 7853515--7853540 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
7853505 TAAGGCTGTA
7853515 AGAAG AGAAG AGAAG AGAAG AGAAG A
1 AGAAG AGAAG AGAAG AGAAG AGAAG A
7853541 CGAGACTGTA
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:0.38, T:0.00
Consensus pattern (5 bp):
AGAAG
Found at i:7856154 original size:18 final size:18
Alignment explanation
Indices: 7856131--7856166 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
7856121 TTTGAATGTG
7856131 TATATTTTAATAATTTTA
1 TATATTTTAATAATTTTA
*
7856149 TATATTTTTATAATTTTA
1 TATATTTTAATAATTTTA
7856167 AAAATAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
TATATTTTAATAATTTTA
Found at i:7858504 original size:1 final size:1
Alignment explanation
Indices: 7858500--7858526 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
7858490 GTAAAAACAG
7858500 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
7858527 GGTCATTGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:7870499 original size:21 final size:21
Alignment explanation
Indices: 7870473--7870514 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
7870463 TCTAAAAATT
*
7870473 ATAAAAATTATAA-AAAAAAC
1 ATAAAAAATATAATAAAAAAC
*
7870493 ATAAAAAATATAATAATAAAC
1 ATAAAAAATATAATAAAAAAC
7870514 A
1 A
7870515 AATTTATGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (21 bp):
ATAAAAAATATAATAAAAAAC
Found at i:7891928 original size:31 final size:31
Alignment explanation
Indices: 7891887--7891950 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
7891877 TTACAATTTG
* *
7891887 GTCACTGAACTATTCGAAAGTTTTCATTTAA
1 GTCACTGAACTATTCAAAAATTTTCATTTAA
* * *
7891918 GTCATTGAACTATTTAAAAATTTTTATTTAA
1 GTCACTGAACTATTCAAAAATTTTCATTTAA
7891949 GT
1 GT
7891951 TACTAGGCTG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.44
Consensus pattern (31 bp):
GTCACTGAACTATTCAAAAATTTTCATTTAA
Found at i:7894172 original size:17 final size:18
Alignment explanation
Indices: 7894152--7894185 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
7894142 TGTATTTTTT
7894152 TAATTTTATAT-TTTTCA
1 TAATTTTATATGTTTTCA
7894169 TAATTTTATATGTTTTC
1 TAATTTTATATGTTTTC
7894186 TTATATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.26, C:0.06, G:0.03, T:0.65
Consensus pattern (18 bp):
TAATTTTATATGTTTTCA
Found at i:7894509 original size:19 final size:19
Alignment explanation
Indices: 7894463--7894513 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
7894453 CTTAAATATC
7894463 TATATAATTATATATAAAT
1 TATATAATTATATATAAAT
*
7894482 TAT-TCAATTTTGATAT-AAT
1 TATAT-AATTAT-ATATAAAT
7894501 TATATAATTATAT
1 TATATAATTATAT
7894514 TATATTTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
18 3 0.11
19 19 0.70
20 5 0.19
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (19 bp):
TATATAATTATATATAAAT
Found at i:7906567 original size:19 final size:19
Alignment explanation
Indices: 7906530--7906567 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
7906520 CCAACAGCAG
*
7906530 CTCCTTTTTTCTTTTTTTT
1 CTCCTTTTTCCTTTTTTTT
7906549 CTCC-TTTTCCTTTTCTTTT
1 CTCCTTTTTCCTTTT-TTTT
7906568 GAATGCATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (19 bp):
CTCCTTTTTCCTTTTTTTT
Found at i:7908511 original size:4 final size:4
Alignment explanation
Indices: 7908504--7908532 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
7908494 TCTCACCAAC
7908504 TCTT TCTT TCTT TCTT TCTT TC-T TCTT TC
1 TCTT TCTT TCTT TCTT TCTT TCTT TCTT TC
7908533 CATTCACTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
3 3 0.12
4 21 0.88
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (4 bp):
TCTT
Found at i:7915549 original size:21 final size:20
Alignment explanation
Indices: 7915525--7915563 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
7915515 AAGTTGTTTA
*
7915525 TCTATCAACAAACTTTCATTT
1 TCTA-CAACAAAATTTCATTT
*
7915546 TCTACAATAAAATTTCAT
1 TCTACAACAAAATTTCAT
7915564 AATTCATGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.38, C:0.21, G:0.00, T:0.41
Consensus pattern (20 bp):
TCTACAACAAAATTTCATTT
Found at i:7918010 original size:25 final size:26
Alignment explanation
Indices: 7917982--7918039 Score: 61
Period size: 25 Copynumber: 2.3 Consensus size: 26
7917972 AATTATTCTT
*
7917982 TAAATTATTA-CATTAAATTAAT-TAA
1 TAAATTATTATC-TTAAAATAATATAA
7918007 TAAAATT-TTATCTTAAAATAATATAA
1 T-AAATTATTATCTTAAAATAATATAA
7918033 T-AATTAT
1 TAAATTAT
7918040 ATTATAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
24 4 0.14
25 14 0.50
26 10 0.36
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (26 bp):
TAAATTATTATCTTAAAATAATATAA
Found at i:7919154 original size:6 final size:6
Alignment explanation
Indices: 7919143--7919181 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
7919133 AGCGCATGAA
7919143 AGAGAT AGAGAT AGAGAT AGAGAT AGAGAT AGAGAT AGA
1 AGAGAT AGAGAT AGAGAT AGAGAT AGAGAT AGAGAT AGA
7919182 AGTGTCAGGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.33, T:0.15
Consensus pattern (6 bp):
AGAGAT
Found at i:7928772 original size:36 final size:36
Alignment explanation
Indices: 7928725--7928796 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
7928715 TGAGGGAAAG
7928725 AAAACTAGTCTGTGAGCATGGAAGCAGTAAACTACA
1 AAAACTAGTCTGTGAGCATGGAAGCAGTAAACTACA
*
7928761 AAAACTAGTCTGTGAGCATGGAAGTAGTAAACTACA
1 AAAACTAGTCTGTGAGCATGGAAGCAGTAAACTACA
7928797 TAAGCTCATC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.42, C:0.15, G:0.22, T:0.21
Consensus pattern (36 bp):
AAAACTAGTCTGTGAGCATGGAAGCAGTAAACTACA
Found at i:7933878 original size:23 final size:21
Alignment explanation
Indices: 7933852--7933896 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 21
7933842 ATCAAATTAC
7933852 TAAAAAAAAATTTAATATTAGAG
1 TAAAAAAAAA-TTAAT-TTAGAG
* *
7933875 TAAAATAACATTAATTTAGAG
1 TAAAAAAAAATTAATTTAGAG
7933896 T
1 T
7933897 CAAATTATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 5 0.25
23 8 0.40
ACGTcount: A:0.56, C:0.02, G:0.09, T:0.33
Consensus pattern (21 bp):
TAAAAAAAAATTAATTTAGAG
Found at i:7933879 original size:22 final size:21
Alignment explanation
Indices: 7933852--7933901 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
7933842 ATCAAATTAC
*
7933852 TAAAAAAAAATTTAATATTAGAG
1 TAAAATAAAA-TTAAT-TTAGAG
*
7933875 TAAAATAACATTAATTTAGAG
1 TAAAATAAAATTAATTTAGAG
*
7933896 TCAAAT
1 TAAAAT
7933902 TATGATTTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 11 0.46
22 5 0.21
23 8 0.33
ACGTcount: A:0.56, C:0.04, G:0.08, T:0.32
Consensus pattern (21 bp):
TAAAATAAAATTAATTTAGAG
Found at i:7934734 original size:19 final size:19
Alignment explanation
Indices: 7934710--7934747 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
7934700 TATCAAATAA
* *
7934710 AAAATTCATGTGTAAAATT
1 AAAATTCATATATAAAATT
7934729 AAAATTCATATATAAAATT
1 AAAATTCATATATAAAATT
7934748 GCATAAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.37
Consensus pattern (19 bp):
AAAATTCATATATAAAATT
Found at i:7934756 original size:29 final size:30
Alignment explanation
Indices: 7934722--7934803 Score: 112
Period size: 29 Copynumber: 2.7 Consensus size: 30
7934712 AATTCATGTG
*
7934722 TAAAATTAAAATTCATATATAAAATTG-CA
1 TAAAATTAAAATTTATATATAAAATTGACA
* *
7934751 TAAAATTAAAATTTATGTATAACATTGTACA
1 TAAAATTAAAATTTATATATAAAATTG-ACA
*
7934782 TTAAATTAAAATTTATATATAA
1 TAAAATTAAAATTTATATATAA
7934804 TTTTCAGAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 24 0.52
31 22 0.48
ACGTcount: A:0.52, C:0.05, G:0.04, T:0.39
Consensus pattern (30 bp):
TAAAATTAAAATTTATATATAAAATTGACA
Found at i:7942850 original size:3 final size:3
Alignment explanation
Indices: 7942842--7942868 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
7942832 ATTATACCAA
7942842 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
7942869 TTAATCCACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Done.