Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001174.1 Hibiscus syriacus cultivar Beakdansim tig00002338_pilon, whole genome shotgun sequence
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: 2182627
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 11
Found at i:543423 original size:18 final size:18
Alignment explanation
Indices: 543400--543449 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
543390 CCACTATGCC
*
543400 ACGACCACGGCTAGTTCG
1 ACGACCACGTCTAGTTCG
* *
543418 ACGACCACATCTAGTTTG
1 ACGACCACGTCTAGTTCG
543436 ACGACCACGTCTAG
1 ACGACCACGTCTAG
543450 CACTCATCTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.26, C:0.32, G:0.22, T:0.20
Consensus pattern (18 bp):
ACGACCACGTCTAGTTCG
Found at i:544226 original size:149 final size:150
Alignment explanation
Indices: 543956--544255 Score: 584
Period size: 149 Copynumber: 2.0 Consensus size: 150
543946 AGTTCGGAGG
543956 ACAGAATATTACAACAAAATACTCTGAACAAAATGCACCAATCCTCCAAGTACCTGATACGGATT
1 ACAGAATATTACAACAAAATACTCTGAACAAAATGCACCAATCCTCCAAGTACCTGATACGGATT
544021 GTCTATCCGAGAGTATCTGAAAGGGATAAAACAGTTTGAAAAGTGAGCTAGAGGCTCA-GTGTCC
66 GTCTATCCGAGAGTATCTGAAAGGGATAAAACAGTTTGAAAAGTGAGCTAGAGGCTCAGGTGTCC
544085 CAACAGTGCAGAAATAAAAA
131 CAACAGTGCAGAAATAAAAA
544105 ACAGAATATTACAACAAAATACTCTGAACAAAATGCACCAATCCTCCAAGTACCTGATACGGATT
1 ACAGAATATTACAACAAAATACTCTGAACAAAATGCACCAATCCTCCAAGTACCTGATACGGATT
544170 GTCTATCCGAGAGTATCTGAAAGGGATAAAACAGTTTGAAAAGTGAGCTAGAGGCTCAGTGTGTC
66 GTCTATCCGAGAGTATCTGAAAGGGATAAAACAGTTTGAAAAGTGAGCTAGAGGCTCAG-GTGTC
544235 CCAACAGTGCAGAAATAAAAA
130 CCAACAGTGCAGAAATAAAAA
544256 CATGCAATTA
Statistics
Matches: 149, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
149 123 0.83
151 26 0.17
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.21
Consensus pattern (150 bp):
ACAGAATATTACAACAAAATACTCTGAACAAAATGCACCAATCCTCCAAGTACCTGATACGGATT
GTCTATCCGAGAGTATCTGAAAGGGATAAAACAGTTTGAAAAGTGAGCTAGAGGCTCAGGTGTCC
CAACAGTGCAGAAATAAAAA
Found at i:544563 original size:31 final size:31
Alignment explanation
Indices: 544500--544563 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
544490 TAGGTCCATA
* * *
544500 AGGAATTACCAATCGGTGTTGAACCTATCAG
1 AGGAATTACCAATCAGTGCTGAACCTACCAG
*
544531 AGGAATTACCAA-CAGTGACTGAACCTGCCAG
1 AGGAATTACCAATCAGTG-CTGAACCTACCAG
544562 AG
1 AG
544564 TCTTCATACC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 4 0.14
31 24 0.86
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.20
Consensus pattern (31 bp):
AGGAATTACCAATCAGTGCTGAACCTACCAG
Found at i:544850 original size:59 final size:59
Alignment explanation
Indices: 544787--544953 Score: 232
Period size: 57 Copynumber: 2.9 Consensus size: 59
544777 TTTATTCTGC
*
544787 ACAGAAATTAATTACGTATTAGGCACCTTTTTAAAACTATTTAAAAAAATAGCACCTTA
1 ACAGAAATTAATTACGTATTAGGCACCTTTTTAAAAATATTTAAAAAAATAGCACCTTA
* * * *
544846 ACAGAAATTATTTATGTATTAGGAACC-TTTTAAAAATATTT-ACAAAATAGCACCTTA
1 ACAGAAATTAATTACGTATTAGGCACCTTTTTAAAAATATTTAAAAAAATAGCACCTTA
* * *
544903 AAAGAAATTAATTACGTATTAGACA-CTCTTTTAAAAATATTTACAAAAATA
1 ACAGAAATTAATTACGTATTAGGCACCT-TTTTAAAAATATTTAAAAAAATA
544954 ACACACGAGT
Statistics
Matches: 93, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
56 1 0.01
57 35 0.38
58 27 0.29
59 30 0.32
ACGTcount: A:0.46, C:0.13, G:0.08, T:0.34
Consensus pattern (59 bp):
ACAGAAATTAATTACGTATTAGGCACCTTTTTAAAAATATTTAAAAAAATAGCACCTTA
Found at i:546641 original size:22 final size:21
Alignment explanation
Indices: 546599--546638 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
546589 AAGACTATTT
546599 TCATTTTTCAATTTTGAAATA
1 TCATTTTTCAATTTTGAAATA
546620 TCATTTTT-ATATTTTGAAA
1 TCATTTTTCA-ATTTTGAAA
546639 ATAAAGTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (21 bp):
TCATTTTTCAATTTTGAAATA
Found at i:548650 original size:65 final size:63
Alignment explanation
Indices: 548569--548726 Score: 167
Period size: 65 Copynumber: 2.4 Consensus size: 63
548559 GTACAATAGA
* * * *
548569 TTGTGTATCAGTGCACAAATTTGCTTCGATGTTTCAA-AAATAGCCGGGGTGCATCGATGCATGA
1 TTGTGCATCGGTGCACAAA-TTGCTTCGATGTTTCAATAAA-AGCCAGAGTGCATCGATGCATG-
548633 C
63 C
* * * *
548634 TTGTGCATCGGTGCACAAAAT-CAATTCGATGTTTTAATAAAATCCAGAGTGCATCGATGCATGG
1 TTGTGCATCGGTGCACAAATTGC--TTCGATGTTTCAATAAAAGCCAGAGTGCATCGATGCATGC
*
548698 TTGTGCATCGGTGCATAAATTGCATTCGA
1 TTGTGCATCGGTGCACAAATTGC-TTCGA
548727 AATGGGTGTG
Statistics
Matches: 79, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
63 1 0.01
64 26 0.33
65 49 0.62
66 3 0.04
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (63 bp):
TTGTGCATCGGTGCACAAATTGCTTCGATGTTTCAATAAAAGCCAGAGTGCATCGATGCATGC
Found at i:550502 original size:20 final size:21
Alignment explanation
Indices: 550479--550536 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 21
550469 GCCAAATTTG
550479 ATTTTGAAAATCAAAATGA-A
1 ATTTTGAAAATCAAAATGAGA
* *
550499 ATTTTGAAAA-AAAAATTAGA
1 ATTTTGAAAATCAAAATGAGA
*
550519 ATTTTCAAAAGTCAAAAT
1 ATTTTGAAAA-TCAAAAT
550537 CAATGATTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
19 6 0.19
20 20 0.65
22 5 0.16
ACGTcount: A:0.55, C:0.05, G:0.09, T:0.31
Consensus pattern (21 bp):
ATTTTGAAAATCAAAATGAGA
Found at i:550534 original size:41 final size:42
Alignment explanation
Indices: 550479--550559 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 42
550469 GCCAAATTTG
* * *
550479 ATTTTGAAAATCAAAATGAA-ATTTTGAAAAA-AAAATTAGA
1 ATTTTCAAAATCAAAATCAAGATTTGGAAAAAGAAAATTAGA
550519 ATTTTCAAAAGTCAAAATCAATGATTTGGAAAAAGAAAATT
1 ATTTTCAAAA-TCAAAATCAA-GATTTGGAAAAAGAAAATT
550560 TTGATTTGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
40 9 0.26
41 9 0.26
43 10 0.29
44 6 0.18
ACGTcount: A:0.54, C:0.05, G:0.11, T:0.30
Consensus pattern (42 bp):
ATTTTCAAAATCAAAATCAAGATTTGGAAAAAGAAAATTAGA
Found at i:551806 original size:20 final size:19
Alignment explanation
Indices: 551771--551808 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
551761 ATTGAATCTA
*
551771 TTCAAAAGTTTTCAAAGTT
1 TTCAAAAGTATTCAAAGTT
551790 TTCAAAAGTAATTCAAAGT
1 TTCAAAAGT-ATTCAAAGT
551809 CCTTAAAGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.37
Consensus pattern (19 bp):
TTCAAAAGTATTCAAAGTT
Found at i:551890 original size:20 final size:21
Alignment explanation
Indices: 551865--551904 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
551855 CTATGTATAG
551865 TAGTATCGATACCAT-AAGCA
1 TAGTATCGATACCATCAAGCA
551885 TAGTATCGATACCATCAAGC
1 TAGTATCGATACCATCAAGC
551905 CCCAATGACT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (21 bp):
TAGTATCGATACCATCAAGCA
Found at i:553775 original size:41 final size:42
Alignment explanation
Indices: 553728--553819 Score: 107
Period size: 42 Copynumber: 2.2 Consensus size: 42
553718 AAAATGCCTC
* *
553728 ACATTAATACTT-TGGCTGAAACGGGCCTTCAAAACGCCCCA
1 ACATTAATACTTCTGACTGAAACGGGCCTTCAAAACACCCCA
* * * * *
553769 ATATTAATTCTTCTTACTGAAATGGGCTTTCAAAACACCCCA
1 ACATTAATACTTCTGACTGAAACGGGCCTTCAAAACACCCCA
553811 ACA-TAATAC
1 ACATTAATAC
553820 AGACCTTCAA
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
41 15 0.37
42 26 0.63
ACGTcount: A:0.35, C:0.26, G:0.12, T:0.27
Consensus pattern (42 bp):
ACATTAATACTTCTGACTGAAACGGGCCTTCAAAACACCCCA
Found at i:558536 original size:11 final size:11
Alignment explanation
Indices: 558520--558548 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
558510 GGTGTTATAT
558520 AAGCTTAAGTA
1 AAGCTTAAGTA
558531 AAGCTTAAGTA
1 AAGCTTAAGTA
558542 AAGCTTA
1 AAGCTTA
558549 TATAGGATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.45, C:0.10, G:0.17, T:0.28
Consensus pattern (11 bp):
AAGCTTAAGTA
Found at i:559517 original size:14 final size:15
Alignment explanation
Indices: 559481--559521 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
559471 TATGATTATA
*
559481 TGAATATGAA-AATG
1 TGAATGTGAACAATG
559495 TGAACTGTGAACAA-G
1 TGAA-TGTGAACAATG
559510 TGAATGTGAACA
1 TGAATGTGAACA
559522 GACTCTACGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 12 0.50
15 10 0.42
16 2 0.08
ACGTcount: A:0.44, C:0.07, G:0.24, T:0.24
Consensus pattern (15 bp):
TGAATGTGAACAATG
Found at i:559687 original size:21 final size:21
Alignment explanation
Indices: 559654--559729 Score: 68
Period size: 21 Copynumber: 3.6 Consensus size: 21
559644 TCGAGGGTTT
559654 TATGTGGTC-CTTCGGGACAAA
1 TATGTGG-CACTTCGGGACAAA
*
559675 TATATGGCACTTCGGTG-CAAA
1 TATGTGGCACTTCGG-GACAAA
* *
559696 CTATGTGGTC-TTTCGGGACAAT
1 -TATGTGG-CACTTCGGGACAAA
559718 TATGTGGCACTT
1 TATGTGGCACTT
559730 TGGTGCAAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
20 2 0.05
21 26 0.59
22 15 0.34
23 1 0.02
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.33
Consensus pattern (21 bp):
TATGTGGCACTTCGGGACAAA
Found at i:559715 original size:43 final size:43
Alignment explanation
Indices: 559654--559738 Score: 134
Period size: 43 Copynumber: 2.0 Consensus size: 43
559644 TCGAGGGTTT
559654 TATGTGGTCCTTCGGGACAAATATATGGCACTTCGGTGCAAAC
1 TATGTGGTCCTTCGGGACAAATATATGGCACTTCGGTGCAAAC
* * * *
559697 TATGTGGTCTTTCGGGACAATTATGTGGCACTTTGGTGCAAA
1 TATGTGGTCCTTCGGGACAAATATATGGCACTTCGGTGCAAA
559739 TTACAAGATG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.32
Consensus pattern (43 bp):
TATGTGGTCCTTCGGGACAAATATATGGCACTTCGGTGCAAAC
Found at i:559730 original size:22 final size:22
Alignment explanation
Indices: 559664--559730 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 22
559654 TATGTGGTCC
*
559664 TTCGGGACAAATATATGGCAC-
1 TTCGGGACAAATATGTGGCACT
*
559685 TTCGGTG-CAAACTATGTGG-TCT
1 TTCGG-GACAAA-TATGTGGCACT
*
559707 TTCGGGACAATTATGTGGCACT
1 TTCGGGACAAATATGTGGCACT
559729 TT
1 TT
559731 GGTGCAAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
21 18 0.49
22 19 0.51
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (22 bp):
TTCGGGACAAATATGTGGCACT
Found at i:559740 original size:22 final size:22
Alignment explanation
Indices: 559671--559741 Score: 60
Period size: 21 Copynumber: 3.3 Consensus size: 22
559661 TCCTTCGGGA
* *
559671 CAAA-TATATGGCACTTCGGTG
1 CAAATTATGTGGCACTTTGGTG
* *
559692 CAAACTATGTGG-TCTTTCGG-G
1 CAAATTATGTGGCACTTT-GGTG
559713 -ACAATTATGTGGCACTTTGGTG
1 CA-AATTATGTGGCACTTTGGTG
559735 CAAATTA
1 CAAATTA
559742 CAAGATGTGG
Statistics
Matches: 39, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
20 1 0.03
21 19 0.49
22 18 0.46
23 1 0.03
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (22 bp):
CAAATTATGTGGCACTTTGGTG
Found at i:560885 original size:16 final size:16
Alignment explanation
Indices: 560864--560894 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
560854 AATTGGATGG
560864 TGTAGTTTCATTATTA
1 TGTAGTTTCATTATTA
*
560880 TGTAGTTTTATTATT
1 TGTAGTTTCATTATT
560895 TTGCTTAAAA
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:0.23, C:0.03, G:0.13, T:0.61
Consensus pattern (16 bp):
TGTAGTTTCATTATTA
Found at i:574651 original size:11 final size:11
Alignment explanation
Indices: 574637--574663 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
574627 TCCTGTGATT
574637 GGTTTGTGGAG
1 GGTTTGTGGAG
574648 GGTTTGTGGAG
1 GGTTTGTGGAG
574659 GGTTT
1 GGTTT
574664 ACGACCCCGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.07, C:0.00, G:0.52, T:0.41
Consensus pattern (11 bp):
GGTTTGTGGAG
Found at i:579420 original size:19 final size:20
Alignment explanation
Indices: 579381--579426 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
579371 TGAAGATGTT
*
579381 TCGATACTGTAAGGGTAGTA
1 TCGATACTGTAAGGATAGTA
*
579401 TCGATACTG-AATGATAGTA
1 TCGATACTGTAAGGATAGTA
579420 TCGATAC
1 TCGATAC
579427 CATGCAAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.30
Consensus pattern (20 bp):
TCGATACTGTAAGGATAGTA
Found at i:584952 original size:19 final size:20
Alignment explanation
Indices: 584913--584958 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
584903 TGAAGATGTT
*
584913 TCGATACTGTAAGGGTAGTA
1 TCGATACTGTAAGGATAGTA
*
584933 TCGATACTG-AATGATAGTA
1 TCGATACTGTAAGGATAGTA
584952 TCGATAC
1 TCGATAC
584959 CATGCAAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.30
Consensus pattern (20 bp):
TCGATACTGTAAGGATAGTA
Found at i:595388 original size:412 final size:412
Alignment explanation
Indices: 594624--595445 Score: 1644
Period size: 412 Copynumber: 2.0 Consensus size: 412
594614 AAGACTGTTT
594624 GAACAAATCTAAGGCCTCGTCTTGAGATATTTAAATAATTGAACATCCTTATTCTCATTAAATAT
1 GAACAAATCTAAGGCCTCGTCTTGAGATATTTAAATAATTGAACATCCTTATTCTCATTAAATAT
594689 CGCTAAAATAATTAATTAATTGTGTTTGTTTGATTTATGTTTTTTATTTATTTTATTTTTGCATG
66 CGCTAAAATAATTAATTAATTGTGTTTGTTTGATTTATGTTTTTTATTTATTTTATTTTTGCATG
594754 TGTTTTCGATAGATTTTCAAAATAATAACATTCGAATCGACAATGAGAATGGTAATATCCTTTCA
131 TGTTTTCGATAGATTTTCAAAATAATAACATTCGAATCGACAATGAGAATGGTAATATCCTTTCA
594819 TTTCGGTCGGAGTAATAAATGACTGCTTTAAGGCATAAGAGATCATATTGGAAATAATTTGATAT
196 TTTCGGTCGGAGTAATAAATGACTGCTTTAAGGCATAAGAGATCATATTGGAAATAATTTGATAT
594884 TGTTGTTTTCTCTTGAATTAATATCGATTTTTTAGATAGAATATTAATATCTCTTTATTTCAATT
261 TGTTGTTTTCTCTTGAATTAATATCGATTTTTTAGATAGAATATTAATATCTCTTTATTTCAATT
594949 GGGGTAATAAATGACTATTTTAATGCACGAAAGGTCGTTTATTCTCGATTGGAAATCATTAGATG
326 GGGGTAATAAATGACTATTTTAATGCACGAAAGGTCGTTTATTCTCGATTGGAAATCATTAGATG
595014 TTATTATTTTCACTTGAATCTA
391 TTATTATTTTCACTTGAATCTA
595036 GAACAAATCTAAGGCCTCGTCTTGAGATATTTAAATAATTGAACATCCTTATTCTCATTAAATAT
1 GAACAAATCTAAGGCCTCGTCTTGAGATATTTAAATAATTGAACATCCTTATTCTCATTAAATAT
595101 CGCTAAAATAATTAATTAATTGTGTTTGTTTGATTTATGTTTTTTATTTATTTTATTTTTGCATG
66 CGCTAAAATAATTAATTAATTGTGTTTGTTTGATTTATGTTTTTTATTTATTTTATTTTTGCATG
595166 TGTTTTCGATAGATTTTCAAAATAATAACATTCGAATCGACAATGAGAATGGTAATATCCTTTCA
131 TGTTTTCGATAGATTTTCAAAATAATAACATTCGAATCGACAATGAGAATGGTAATATCCTTTCA
595231 TTTCGGTCGGAGTAATAAATGACTGCTTTAAGGCATAAGAGATCATATTGGAAATAATTTGATAT
196 TTTCGGTCGGAGTAATAAATGACTGCTTTAAGGCATAAGAGATCATATTGGAAATAATTTGATAT
595296 TGTTGTTTTCTCTTGAATTAATATCGATTTTTTAGATAGAATATTAATATCTCTTTATTTCAATT
261 TGTTGTTTTCTCTTGAATTAATATCGATTTTTTAGATAGAATATTAATATCTCTTTATTTCAATT
595361 GGGGTAATAAATGACTATTTTAATGCACGAAAGGTCGTTTATTCTCGATTGGAAATCATTAGATG
326 GGGGTAATAAATGACTATTTTAATGCACGAAAGGTCGTTTATTCTCGATTGGAAATCATTAGATG
595426 TTATTATTTTCACTTGAATC
391 TTATTATTTTCACTTGAATC
595446 GATATTGAAT
Statistics
Matches: 410, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
412 410 1.00
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.42
Consensus pattern (412 bp):
GAACAAATCTAAGGCCTCGTCTTGAGATATTTAAATAATTGAACATCCTTATTCTCATTAAATAT
CGCTAAAATAATTAATTAATTGTGTTTGTTTGATTTATGTTTTTTATTTATTTTATTTTTGCATG
TGTTTTCGATAGATTTTCAAAATAATAACATTCGAATCGACAATGAGAATGGTAATATCCTTTCA
TTTCGGTCGGAGTAATAAATGACTGCTTTAAGGCATAAGAGATCATATTGGAAATAATTTGATAT
TGTTGTTTTCTCTTGAATTAATATCGATTTTTTAGATAGAATATTAATATCTCTTTATTTCAATT
GGGGTAATAAATGACTATTTTAATGCACGAAAGGTCGTTTATTCTCGATTGGAAATCATTAGATG
TTATTATTTTCACTTGAATCTA
Found at i:595513 original size:131 final size:131
Alignment explanation
Indices: 595277--595570 Score: 349
Period size: 131 Copynumber: 2.2 Consensus size: 131
595267 AAGAGATCAT
* * * * * * *
595277 ATTGGAAATAATTTGATATTGTTGTTTTCTCTTGAATTAATATCGATTTTTTAGATAGAATATTA
1 ATTGGAAATAATTAGATATTATTGTTTTCACTTGAATCAATATCGAATTTTAAGATAGAATAGTA
* * * *
595342 ATATCTCTTTATTTCAATTGGGGTAATAAATGACTATTTTAATGCACGAAAGGTCGTTTATTCTC
66 ATATCTCTTTATTTCAATTGGAGTAATAAATGACTATTTTAATGCACAAAAGGTCATTTATTATC
595407 G
131 G
* * * * *
595408 ATTGGAAATCATTAGATGTTATTATTTTCACTTGAATCGATATTGAATTTTAAGAT-GAAATAGT
1 ATTGGAAATAATTAGATATTATTGTTTTCACTTGAATCAATATCGAATTTTAAGATAG-AATAGT
* * ** *
595472 AATA-CATCTTTATTTCATTTGGAGTAATGAATGGTTGTTTTAATGCACAAAAGGTCATTTATTA
65 AATATC-TCTTTATTTCAATTGGAGTAATAAATGACTATTTTAATGCACAAAAGGTCATTTATTA
595536 TCG
129 TCG
* *
595539 ATAGAAAATAATTAGATATTATTGTTTTCACT
1 ATTGGAAATAATTAGATATTATTGTTTTCACT
595571 CTTAAAAGTA
Statistics
Matches: 135, Mismatches: 26, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
130 2 0.01
131 133 0.99
ACGTcount: A:0.33, C:0.09, G:0.15, T:0.44
Consensus pattern (131 bp):
ATTGGAAATAATTAGATATTATTGTTTTCACTTGAATCAATATCGAATTTTAAGATAGAATAGTA
ATATCTCTTTATTTCAATTGGAGTAATAAATGACTATTTTAATGCACAAAAGGTCATTTATTATC
G
Found at i:598927 original size:40 final size:40
Alignment explanation
Indices: 598839--598927 Score: 110
Period size: 39 Copynumber: 2.2 Consensus size: 40
598829 AAACTTTAGC
*
598839 GGTGTTTCTTTACAAAAGCCATAATAGGGTTCATCTATAGT
1 GGTGTTT-TTTACAAAAGCCACAATAGGGTTCATCTATAGT
* * *
598880 GGAT-TTTTTGACAAATGCCGCAATA-GGTTCATCTATAGT
1 GG-TGTTTTTTACAAAAGCCACAATAGGGTTCATCTATAGT
598919 GGTGTTTTT
1 GGTGTTTTT
598928 CAATAAACGT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
38 1 0.02
39 21 0.50
40 14 0.33
41 5 0.12
42 1 0.02
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.39
Consensus pattern (40 bp):
GGTGTTTTTTACAAAAGCCACAATAGGGTTCATCTATAGT
Found at i:598942 original size:40 final size:40
Alignment explanation
Indices: 598861--598942 Score: 96
Period size: 39 Copynumber: 2.0 Consensus size: 40
598851 CAAAAGCCAT
* *
598861 AATAGGGTTCATCTATAGTGGATTTTTTGACAAATGCCGC
1 AATAGGGTTCATCTATAGTGGATTTTTTAACAAACGCCGC
* *
598901 AATA-GGTTCATCTATAGTGG-TGTTTTTCAATAAACGTCGC
1 AATAGGGTTCATCTATAGTGGAT-TTTTT-AACAAACGCCGC
598941 AA
1 AA
598943 CAAATTAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
38 1 0.03
39 21 0.58
40 14 0.39
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (40 bp):
AATAGGGTTCATCTATAGTGGATTTTTTAACAAACGCCGC
Found at i:599056 original size:82 final size:80
Alignment explanation
Indices: 598890--599099 Score: 217
Period size: 82 Copynumber: 2.6 Consensus size: 80
598880 GGATTTTTTG
** * *
598890 ACAAATGCCGCAATAGGTTCATCTATAGTGG-TGTTTTTCAATAAACGTCGCAACAAATTAATAC
1 ACAAATGCCGCAATAGGTTCATCTATAGTGGCT-TTTTTCAATAAACACCGCAACAAAGTAATAA
* *
598954 TTTAGCAGCGTTTTTAT
65 TTTA-CAGCATTGTTAT
* * * * *
598971 ACAAACGCCGCAATAGGTCCATTTATAGTGGCATTTTTTCAATAAACACCGCAACATAGTAGTAA
1 ACAAATGCCGCAATAGGTTCATCTATAGTGGC-TTTTTTCAATAAACACCGCAACAAAGTAATAA
599036 TTTA-ATGTCATTGTTAT
65 TTTACA-G-CATTGTTAT
* * *
599053 ACAAATGTCGTAATAGGGTTCACCTATAGTGGCCTTTTTTCAATAAA
1 ACAAATGCCGCAATA-GGTTCATCTATAGTGG-CTTTTTTCAATAAA
599100 TATCGTAACA
Statistics
Matches: 106, Mismatches: 17, Indels: 10
0.80 0.13 0.08
Matches are distributed among these distances:
80 1 0.01
81 29 0.27
82 48 0.45
83 27 0.25
84 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.34
Consensus pattern (80 bp):
ACAAATGCCGCAATAGGTTCATCTATAGTGGCTTTTTTCAATAAACACCGCAACAAAGTAATAAT
TTACAGCATTGTTAT
Found at i:599136 original size:83 final size:81
Alignment explanation
Indices: 598890--599182 Score: 277
Period size: 83 Copynumber: 3.6 Consensus size: 81
598880 GGATTTTTTG
* * *
598890 ACAAATGCCGCAATAGGTTCATCTATAGTGG-TGTTTTTCAATAAACGTCGCAACAAATTA-ATA
1 ACAAATGCCGCAATAGGTTCACCTATAGTGGCT-TTTTTCAATAAACATCGCAACATATTAGA-A
*
598953 CTTTAGCAGCGTTTTTAT
64 CTTTAGCGGCGTTTTTAT
* * ** * *
598971 ACAAACGCCGCAATAGGTCCATTTATAGTGGCATTTTTTCAATAAACACCGCAACATAGTAGTAA
1 ACAAATGCCGCAATAGGTTCACCTATAGTGGC-TTTTTTCAATAAACATCGCAACATATTAG-AA
** * * *
599036 -TTTAATGTCATTGTTAT
64 CTTTAGCGGCGTTTTTAT
* * * *
599053 ACAAATGTCGTAATAGGGTTCACCTATAGTGGCCTTTTTTCAATAAATATCGTAACATATTAGAA
1 ACAAATGCCGCAATA-GGTTCACCTATAGTGG-CTTTTTTCAATAAACATCGCAACATATTAGAA
599118 CTTTAGCGGCGTTTTTAT
64 CTTTAGCGGCGTTTTTAT
* * * * *
599136 ACAAATACCGCAATAGTATTTACCTATAGTGACGTTTTTTAAATAAA
1 ACAAATGCCGCAATAG-GTTCACCTATAGTGGC-TTTTTTCAATAAA
599183 TGTCGCAATT
Statistics
Matches: 168, Mismatches: 35, Indels: 16
0.77 0.16 0.07
Matches are distributed among these distances:
81 28 0.17
82 50 0.30
83 88 0.52
84 2 0.01
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (81 bp):
ACAAATGCCGCAATAGGTTCACCTATAGTGGCTTTTTTCAATAAACATCGCAACATATTAGAACT
TTAGCGGCGTTTTTAT
Found at i:604823 original size:29 final size:29
Alignment explanation
Indices: 604767--604942 Score: 152
Period size: 29 Copynumber: 6.3 Consensus size: 29
604757 TTTACACATT
* * *
604767 TATCATCCTTTT-AAAAAAATTACAAAAA
1 TATCACCCTTTTCAAAATAATTACTAAAA
*
604795 TATCACCCTTTGCAAAATAATTACTAAAA
1 TATCACCCTTTTCAAAATAATTACTAAAA
** * * *
604824 TATCA-TTTTTTTAAAA-ATTTA-TGAAAT
1 TATCACCCTTTTCAAAATAATTACT-AAAA
*
604851 TATCA--CTTTTTAAAA-AATTA-TGAAAA
1 TATCACCCTTTTCAAAATAATTACT-AAAA
* * *
604877 TAGCACCATTTTCAAAATAATTACCAAAA
1 TATCACCCTTTTCAAAATAATTACTAAAA
*
604906 TATCACCATTTTCAAAATAATTACTAAAA
1 TATCACCCTTTTCAAAATAATTACTAAAA
604935 TATCACCC
1 TATCACCC
604943 GGTCAACGGG
Statistics
Matches: 122, Mismatches: 20, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
26 23 0.19
27 12 0.10
28 25 0.20
29 62 0.51
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.35
Consensus pattern (29 bp):
TATCACCCTTTTCAAAATAATTACTAAAA
Found at i:612117 original size:29 final size:29
Alignment explanation
Indices: 612085--612263 Score: 143
Period size: 29 Copynumber: 6.3 Consensus size: 29
612075 TTTACACATT
612085 TATCACCCTTTT-AAAA-AATTTTACAAAAA
1 TATCACCCTTTTCAAAATAA--TTACAAAAA
*
612114 TATCACCCTTTTCAAAATAATTACTAAAA
1 TATCACCCTTTTCAAAATAATTACAAAAA
*** ** * * * *
612143 TATCATTTTTTTTTAAACATTTACGAAAT
1 TATCACCCTTTTCAAAATAATTACAAAAA
* *
612172 TATCA--CTTTTTAAAA-AATTACGAAAA
1 TATCACCCTTTTCAAAATAATTACAAAAA
* * * *
612198 TAGCATCATTTTCAAAATAATTACCAAAA
1 TATCACCCTTTTCAAAATAATTACAAAAA
* *
612227 TATCACCATTTTCAAAATAATTACTAAAA
1 TATCACCCTTTTCAAAATAATTACAAAAA
612256 TATCACCC
1 TATCACCC
612264 GGTCAACGGG
Statistics
Matches: 123, Mismatches: 22, Indels: 10
0.79 0.14 0.06
Matches are distributed among these distances:
26 13 0.11
27 8 0.07
28 8 0.07
29 88 0.72
30 4 0.03
31 2 0.02
ACGTcount: A:0.45, C:0.17, G:0.02, T:0.36
Consensus pattern (29 bp):
TATCACCCTTTTCAAAATAATTACAAAAA
Found at i:612260 original size:84 final size:85
Alignment explanation
Indices: 612093--612261 Score: 196
Period size: 84 Copynumber: 2.0 Consensus size: 85
612083 TTTATCACCC
* * * *** **
612093 TTTTAAAAAATTTTACAAAAATATCACCCTTTTCAAAATAATTACTAAAATATCATTTTTTTTTA
1 TTTTAAAAAA-TTTACAAAAATAGCACCATTTTCAAAATAATTACCAAAATATCACCATTTTCAA
* *
612158 AACATTTACGAAATTATCACT
65 AACAATTACGAAAATATCACT
* *
612179 TTTTAAAAAA-TTACGAAAATAGCATCATTTTCAAAATAATTACCAAAATATCACCATTTTCAAA
1 TTTTAAAAAATTTACAAAAATAGCACCATTTTCAAAATAATTACCAAAATATCACCATTTTCAAA
* *
612243 ATAATTACTAAAATATCAC
66 ACAATTACGAAAATATCAC
612262 CCGGTCAACG
Statistics
Matches: 69, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
84 59 0.86
86 10 0.14
ACGTcount: A:0.46, C:0.15, G:0.02, T:0.37
Consensus pattern (85 bp):
TTTTAAAAAATTTACAAAAATAGCACCATTTTCAAAATAATTACCAAAATATCACCATTTTCAAA
ACAATTACGAAAATATCACT
Found at i:613338 original size:43 final size:42
Alignment explanation
Indices: 613258--613651 Score: 362
Period size: 43 Copynumber: 9.2 Consensus size: 42
613248 ATGGTAATTA
* * *
613258 GCGGCGTTTGTTCCAAACACGCCGCTACAGATATGACCTTTT
1 GCGGCGTTTGTTCCAAAAACGCCGCTATAGATCTGACCTTTT
* **
613300 ACGGCGTTTGTATCCAAAAACGATGCTATAGATCTGACCTTTT
1 GCGGCGTTTGT-TCCAAAAACGCCGCTATAGATCTGACCTTTT
* * * *
613343 GCGGCGTTTGTTACAAAAAAACACCGCTATAAATCTAACCTTTT
1 GCGGCGTTTGTT-C-CAAAAACGCCGCTATAGATCTGACCTTTT
* * *
613387 GCGGAGTTTGTATCCAAAAACGCCGTTATAGATATGA-CTTTGT
1 GCGGCGTTTGT-TCCAAAAACGCCGCTATAGATCTGACCTTT-T
*** * * *
613430 GC-AAATTTGTTCAAAAAACACCGCTATAGATCTCGACATTTT
1 GCGGCGTTTGTTCCAAAAACGCCGCTATAGATCT-GACCTTTT
* * *
613472 GCGGCGTTTGTATCCAAAAATGCCGCTATAGATATGACTTTTT
1 GCGGCGTTTGT-TCCAAAAACGCCGCTATAGATCTGACCTTTT
* * ** *
613515 GCGACGTTTGTTCAAAAAACGCCAATATAAATCTTGACCTTTT
1 GCGGCGTTTGTTCCAAAAACGCCGCTATAGATC-TGACCTTTT
* * * * *
613558 GCGCCGTTTGTAT-AAAAAATGTCGCTATAGAACTGACCTTTT
1 GCGGCGTTTGT-TCCAAAAACGCCGCTATAGATCTGACCTTTT
* * *
613600 ACGGTGTTTGTTCCAAAAACGCCGCTATAGATCTTGACTTTTT
1 GCGGCGTTTGTTCCAAAAACGCCGCTATAGATC-TGACCTTTT
613643 GCGGCGTTT
1 GCGGCGTTT
613652 TTATTTCAGA
Statistics
Matches: 279, Mismatches: 60, Indels: 25
0.77 0.16 0.07
Matches are distributed among these distances:
41 20 0.07
42 75 0.27
43 129 0.46
44 54 0.19
45 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (42 bp):
GCGGCGTTTGTTCCAAAAACGCCGCTATAGATCTGACCTTTT
Found at i:613485 original size:85 final size:85
Alignment explanation
Indices: 613262--613651 Score: 401
Period size: 85 Copynumber: 4.6 Consensus size: 85
613252 TAATTAGCGG
* * * * * **
613262 CGTTTGTTCCAAACACGCCGCTACAGATATGACCTTTTACGGCGTTTGTATCCAAAAACGATGCT
1 CGTTTGTTCAAAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTATCCAAAAACGCCGCT
* *
613327 ATAGATCTGACCTTTTGCGG
66 ATAGATATGACCTTTTGCGA
* * * *
613347 CGTTTGTTACAAAAAAACACCGCTATAAATCTAACCTTTTGCGGAGTTTGTATCCAAAAACGCCG
1 CGTTTGTT-C-AAAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTATCCAAAAACGCCG
*
613412 TTATAGATATGA-CTTTGTGC-A
64 CTATAGATATGACCTTT-TGCGA
** * * *
613433 AATTTGTTCAAAAAACACCGCTATAGATCTCGACATTTTGCGGCGTTTGTATCCAAAAATGCCGC
1 CGTTTGTTCAAAAAACGCCGCTATAGATCT-GACCTTTTGCGGCGTTTGTATCCAAAAACGCCGC
*
613498 TATAGATATGACTTTTTGCGA
65 TATAGATATGACCTTTTGCGA
** * * * * *
613519 CGTTTGTTCAAAAAACGCCAATATAAATCTTGACCTTTTGCGCCGTTTGTAT-AAAAAATGTCGC
1 CGTTTGTTCAAAAAACGCCGCTATAGATC-TGACCTTTTGCGGCGTTTGTATCCAAAAACGCCGC
* *
613583 TATAGA-ACTGACCTTTTACGG
65 TATAGATA-TGACCTTTTGCGA
* * *
613604 TGTTTGTTCCAAAAACGCCGCTATAGATCTTGACTTTTTGCGGCGTTT
1 CGTTTGTTCAAAAAACGCCGCTATAGATC-TGACCTTTTGCGGCGTTT
613652 TTATTTCAGA
Statistics
Matches: 254, Mismatches: 43, Indels: 16
0.81 0.14 0.05
Matches are distributed among these distances:
84 21 0.08
85 119 0.47
86 57 0.22
87 57 0.22
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (85 bp):
CGTTTGTTCAAAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTATCCAAAAACGCCGCT
ATAGATATGACCTTTTGCGA
Found at i:613515 original size:128 final size:127
Alignment explanation
Indices: 613324--613651 Score: 324
Period size: 128 Copynumber: 2.6 Consensus size: 127
613314 CAAAAACGAT
* * * * * *
613324 GCTATAGATCTGACCTTTTGCGGCGTTTGTTACAAAAAAACACCGCTATAAATCTAACCTTTTGC
1 GCTATAGATCTGACCTTTTGCGGCGTTTGTT-C-CAAAAACGCCGCTATAGATATGACTTTTTGC
* ** *
613389 GGAGTTTGTATCCAAAAACGCCGTTATAGAT-ATGA-CTTTGTGC-AAATTTGT-TCAAAAAACA
64 GGAGTTTGT-TCAAAAAACGCCAATATAAATCATGACCTTT-TGCGAAATTTGTAT-AAAAAACA
613450 CC
126 CC
* *
613452 GCTATAGATCTCGACATTTTGCGGCGTTTGTATCCAAAAATGCCGCTATAGATATGACTTTTTGC
1 GCTATAGATCT-GACCTTTTGCGGCGTTTGT-TCCAAAAACGCCGCTATAGATATGACTTTTTGC
* *** ***
613517 -GACGTTTGTTCAAAAAACGCCAATATAAATCTTGACCTTTTGCGCCGTTTGTATAAAAAATGTC
64 GGA-GTTTGTTCAAAAAACGCCAATATAAATCATGACCTTTTGCGAAATTTGTATAAAAAACACC
* * * *
613581 GCTATAGAACTGACCTTTTACGGTGTTTGTTCCAAAAACGCCGCTATAGATCTTGACTTTTTGCG
1 GCTATAGATCTGACCTTTTGCGGCGTTTGTTCCAAAAACGCCGCTATAGAT-ATGACTTTTTGCG
*
613646 GCGTTT
65 GAGTTT
613652 TTATTTCAGA
Statistics
Matches: 165, Mismatches: 26, Indels: 18
0.79 0.12 0.09
Matches are distributed among these distances:
127 39 0.24
128 78 0.47
129 46 0.28
130 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (127 bp):
GCTATAGATCTGACCTTTTGCGGCGTTTGTTCCAAAAACGCCGCTATAGATATGACTTTTTGCGG
AGTTTGTTCAAAAAACGCCAATATAAATCATGACCTTTTGCGAAATTTGTATAAAAAACACC
Found at i:613631 original size:171 final size:171
Alignment explanation
Indices: 613263--613651 Score: 437
Period size: 171 Copynumber: 2.3 Consensus size: 171
613253 AATTAGCGGC
* * * * * *
613263 GTTTGTTCCAAACACGCCGCTACAGATATGACCTTTTACGGCGTTTGTATCCAAAAACGATGCTA
1 GTTTGTTCCAAAAACGCCGCTATAGATCTGACATTTTGCGGCGTTTGTATCCAAAAACGACGCTA
* * ** *
613328 TAGATCTGACCTTTTGCGGCGTTTGTTACAAAAAAACACCGCTATAAATCTAACCTTTTGCGGAG
66 TAGATATGACCTTTTGCGACGTTTGTTACAAAAAAACACCAATATAAATCTAACCTTTTGCGCAG
* * *
613393 TTTGTATCCAAAAACGCCGTTATAGATATGACTTTGTGCAA
131 TTTGTATCAAAAAACGCCGCTATAGATATGACTTTGTACAA
* * * * *
613434 ATTTGTTCAAAAAACACCGCTATAGATCTCGACATTTTGCGGCGTTTGTATCCAAAAATGCCGCT
1 GTTTGTTCCAAAAACGCCGCTATAGATCT-GACATTTTGCGGCGTTTGTATCCAAAAACGACGCT
* * *
613499 ATAGATATGACTTTTTGCGACGTTTGTT-C-AAAAAACGCCAATATAAATCTTGACCTTTTGCGC
65 ATAGATATGACCTTTTGCGACGTTTGTTACAAAAAAACACCAATATAAATC-TAACCTTTTGCGC
* * * **
613562 CGTTTGTAT-AAAAAATGTCGCTATAGA-ACTGACCTTT-TACGGT
129 AGTTTGTATCAAAAAACGCCGCTATAGATA-TGA-CTTTGTAC-AA
*
613605 GTTTGTTCCAAAAACGCCGCTATAGATCTTGACTTTTTGCGGCGTTT
1 GTTTGTTCCAAAAACGCCGCTATAGATC-TGACATTTTGCGGCGTTT
613652 TTATTTCAGA
Statistics
Matches: 181, Mismatches: 31, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
169 1 0.01
170 36 0.20
171 88 0.49
172 56 0.31
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (171 bp):
GTTTGTTCCAAAAACGCCGCTATAGATCTGACATTTTGCGGCGTTTGTATCCAAAAACGACGCTA
TAGATATGACCTTTTGCGACGTTTGTTACAAAAAAACACCAATATAAATCTAACCTTTTGCGCAG
TTTGTATCAAAAAACGCCGCTATAGATATGACTTTGTACAA
Found at i:614032 original size:33 final size:34
Alignment explanation
Indices: 613993--614114 Score: 119
Period size: 34 Copynumber: 3.6 Consensus size: 34
613983 TCTTTTGAAT
613993 ATTTTAA-ATTAAAAGATATTATTATTTGTTTAA
1 ATTTTAATATTAAAAGATATTATTATTTGTTTAA
* * *
614026 ATTTTAATAGTAAAAGGAGT-TTA-AATCTT-TTGAA
1 ATTTTAATATTAAAA-GA-TATTATTAT-TTGTTTAA
*
614060 TATTTCAA-ATTAAAAGATATTATTATTTGTTTAA
1 -ATTTTAATATTAAAAGATATTATTATTTGTTTAA
* *
614094 ATTTGAATATTAAAAGTTATT
1 ATTTTAATATTAAAAGATATT
614115 TAGTTGGAGT
Statistics
Matches: 71, Mismatches: 9, Indels: 17
0.73 0.09 0.18
Matches are distributed among these distances:
32 1 0.01
33 20 0.28
34 36 0.51
35 13 0.18
36 1 0.01
ACGTcount: A:0.42, C:0.02, G:0.09, T:0.48
Consensus pattern (34 bp):
ATTTTAATATTAAAAGATATTATTATTTGTTTAA
Found at i:614036 original size:68 final size:68
Alignment explanation
Indices: 613953--614109 Score: 287
Period size: 68 Copynumber: 2.3 Consensus size: 68
613943 ACAATATCTA
*
613953 TTTAAATTTTAATAGTAAAAGGAGTTTAAATCTTTTGAATATTTTAAATTAAAAGATATTATTAT
1 TTTAAATTTTAATAGTAAAAGGAGTTTAAATCTTTTGAATATTTCAAATTAAAAGATATTATTAT
614018 TTG
66 TTG
614021 TTTAAATTTTAATAGTAAAAGGAGTTTAAATCTTTTGAATATTTCAAATTAAAAGATATTATTAT
1 TTTAAATTTTAATAGTAAAAGGAGTTTAAATCTTTTGAATATTTCAAATTAAAAGATATTATTAT
614086 TTG
66 TTG
* *
614089 TTTAAATTTGAATATTAAAAG
1 TTTAAATTTTAATAGTAAAAG
614110 TTATTTAGTT
Statistics
Matches: 86, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 86 1.00
ACGTcount: A:0.42, C:0.02, G:0.10, T:0.46
Consensus pattern (68 bp):
TTTAAATTTTAATAGTAAAAGGAGTTTAAATCTTTTGAATATTTCAAATTAAAAGATATTATTAT
TTG
Found at i:614040 original size:34 final size:33
Alignment explanation
Indices: 613948--614114 Score: 112
Period size: 34 Copynumber: 4.9 Consensus size: 33
613938 TTAAAACAAT
* *
613948 ATCTATTTAAATTTTAATAGTAAAAGGAGT-TTAA
1 ATCTTTTTAAATTTTAATATTAAAA-GA-TATTAA
* *
613982 ATCTTTTGAATATTTTAA-ATTAAAAGATATTATT
1 ATCTTTTTAA-ATTTTAATATTAAAAGATATTA-A
*
614016 AT-TTGTTTAAATTTTAATAGTAAAAGGAGT-TTAA
1 ATCTT-TTTAAATTTTAATATTAAAA-GA-TATTAA
* * *
614050 ATCTTTTGAATATTTCAA-ATTAAAAGATATTATT
1 ATCTTTTTAA-ATTTTAATATTAAAAGATATTA-A
* *
614084 AT-TTGTTTAAATTTGAATATTAAAAGTTATT
1 ATCTT-TTTAAATTTTAATATTAAAAGATATT
614115 TAGTTGGAGT
Statistics
Matches: 106, Mismatches: 14, Indels: 26
0.73 0.10 0.18
Matches are distributed among these distances:
32 2 0.02
33 27 0.25
34 56 0.53
35 20 0.19
36 1 0.01
ACGTcount: A:0.41, C:0.02, G:0.10, T:0.47
Consensus pattern (33 bp):
ATCTTTTTAAATTTTAATATTAAAAGATATTAA
Found at i:614835 original size:20 final size:20
Alignment explanation
Indices: 614810--614850 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
614800 AACACAAAAG
*
614810 TAGAAGCAAAAACTAGAACT
1 TAGAAGCAAAAACTAAAACT
614830 TAGAAGCAAAAACTAAAACT
1 TAGAAGCAAAAACTAAAACT
614850 T
1 T
614851 CTACCGTCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.56, C:0.15, G:0.12, T:0.17
Consensus pattern (20 bp):
TAGAAGCAAAAACTAAAACT
Found at i:615327 original size:36 final size:36
Alignment explanation
Indices: 615280--615348 Score: 138
Period size: 36 Copynumber: 1.9 Consensus size: 36
615270 CGTTAATGAG
615280 TTAACAAGAGTTAACGATTGAATGACTAAAATCTCA
1 TTAACAAGAGTTAACGATTGAATGACTAAAATCTCA
615316 TTAACAAGAGTTAACGATTGAATGACTAAAATC
1 TTAACAAGAGTTAACGATTGAATGACTAAAATC
615349 GAACACGCCG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.45, C:0.13, G:0.14, T:0.28
Consensus pattern (36 bp):
TTAACAAGAGTTAACGATTGAATGACTAAAATCTCA
Found at i:615563 original size:2 final size:2
Alignment explanation
Indices: 615552--615580 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
615542 TATAAATTAG
615552 TA TA TA -A 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
615581 ATAATGGCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:616625 original size:15 final size:15
Alignment explanation
Indices: 616605--616634 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
616595 ATCTTGAAGA
616605 AGATTTTTTTACTCT
1 AGATTTTTTTACTCT
*
616620 AGATTTTTTTTCTCT
1 AGATTTTTTTACTCT
616635 TTTTAGTTTT
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:0.13, G:0.07, T:0.63
Consensus pattern (15 bp):
AGATTTTTTTACTCT
Found at i:622669 original size:3 final size:3
Alignment explanation
Indices: 622661--622698 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
622651 TATATATAAA
*
622661 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT AAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
622699 CCCCTAAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:624588 original size:15 final size:15
Alignment explanation
Indices: 624562--624628 Score: 62
Period size: 15 Copynumber: 4.4 Consensus size: 15
624552 ATCTTTTATC
*
624562 CACATAGCACACATT
1 CACATAGAACACATT
* *
624577 CTCATAGAACACTTT
1 CACATAGAACACATT
* *
624592 CCACGTAGAATACATT
1 -CACATAGAACACATT
* *
624608 CACATATAACATATT
1 CACATAGAACACATT
624623 CACATA
1 CACATA
624629 CTAATAACAT
Statistics
Matches: 40, Mismatches: 11, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
15 29 0.73
16 11 0.28
ACGTcount: A:0.40, C:0.27, G:0.06, T:0.27
Consensus pattern (15 bp):
CACATAGAACACATT
Found at i:631579 original size:22 final size:23
Alignment explanation
Indices: 631537--631579 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
631527 ATAACAATTT
*
631537 ATAAAATATTATAAAAATATTAC
1 ATAAAATATAATAAAAATATTAC
*
631560 ATAAAATA-AATAAAACTATT
1 ATAAAATATAATAAAAATATT
631580 TTCGATTGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.33
Consensus pattern (23 bp):
ATAAAATATAATAAAAATATTAC
Found at i:636552 original size:18 final size:19
Alignment explanation
Indices: 636529--636623 Score: 69
Period size: 18 Copynumber: 5.3 Consensus size: 19
636519 TATGTTAGAT
* *
636529 AAATAAGGTAAAGA-AAAC
1 AAATAAGATAAAGAGAAAA
636547 AAATAAGATAAAGAGAAAA
1 AAATAAGATAAAGAGAAAA
* *
636566 AAATAA-A-AAGAAAAAAATA
1 AAATAAGATAA-AGAGAAA-A
* *
636585 AAATAA-ATAAA-ATAAAT
1 AAATAAGATAAAGAGAAAA
636602 AAATAAGAT-AAG-GAAAA
1 AAATAAGATAAAGAGAAAA
636619 AAATA
1 AAATA
636624 GTAAAATAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 13
0.75 0.10 0.15
Matches are distributed among these distances:
17 18 0.29
18 25 0.40
19 18 0.29
20 2 0.03
ACGTcount: A:0.75, C:0.01, G:0.11, T:0.14
Consensus pattern (19 bp):
AAATAAGATAAAGAGAAAA
Found at i:636577 original size:14 final size:14
Alignment explanation
Indices: 636554--636600 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
636544 AACAAATAAG
*
636554 ATAAAGAGAAAAAA
1 ATAAAAAGAAAAAA
636568 ATAAAAAGAAAAAA
1 ATAAAAAGAAAAAA
*
636582 ATAAAATA-AATAAA
1 ATAAAA-AGAAAAAA
636596 ATAAA
1 ATAAA
636601 TAAATAAGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 29 0.97
15 1 0.03
ACGTcount: A:0.81, C:0.00, G:0.06, T:0.13
Consensus pattern (14 bp):
ATAAAAAGAAAAAA
Found at i:636591 original size:33 final size:33
Alignment explanation
Indices: 636538--636609 Score: 92
Period size: 33 Copynumber: 2.2 Consensus size: 33
636528 TAAATAAGGT
*
636538 AAAGAAAACAAATAAGATAAAGAGAAAAAAATAA
1 AAAGAAAACAAATAAAATAAAGA-AAAAAAATAA
* *
636572 AAAGAAAA-AAATAAAATAAATAAAATAAATAA
1 AAAGAAAACAAATAAAATAAAGAAAAAAAATAA
636604 ATAAGA
1 A-AAGA
636610 TAAGGAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
32 10 0.29
33 16 0.47
34 8 0.24
ACGTcount: A:0.78, C:0.01, G:0.08, T:0.12
Consensus pattern (33 bp):
AAAGAAAACAAATAAAATAAAGAAAAAAAATAA
Found at i:636592 original size:9 final size:9
Alignment explanation
Indices: 636547--636604 Score: 55
Period size: 9 Copynumber: 6.2 Consensus size: 9
636537 TAAAGAAAAC
636547 AAATAAGATA
1 AAATAA-ATA
*
636557 AAGAGAAA-A
1 AA-ATAAATA
*
636566 AAATAAAAA
1 AAATAAATA
*
636575 GAAAAAAATA
1 -AAATAAATA
636585 AAATAAATA
1 AAATAAATA
636594 AAATAAATA
1 AAATAAATA
636603 AA
1 AA
636605 TAAGATAAGG
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
8 4 0.10
9 23 0.57
10 10 0.25
11 3 0.08
ACGTcount: A:0.79, C:0.00, G:0.07, T:0.14
Consensus pattern (9 bp):
AAATAAATA
Found at i:636601 original size:13 final size:13
Alignment explanation
Indices: 636565--636612 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
636555 TAAAGAGAAA
* *
636565 AAAATAAAAAGAAA
1 AAAATAAATA-AAT
636579 AAAATAAAATAAAT
1 AAAAT-AAATAAAT
636593 AAAATAAATAAAT
1 AAAATAAATAAAT
*
636606 AAGATAA
1 AAAATAA
636613 GGAAAAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
13 14 0.47
14 12 0.40
15 4 0.13
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.17
Consensus pattern (13 bp):
AAAATAAATAAAT
Found at i:636605 original size:22 final size:23
Alignment explanation
Indices: 636547--636612 Score: 62
Period size: 22 Copynumber: 2.8 Consensus size: 23
636537 TAAAGAAAAC
* *
636547 AAATAAGATAAAGAGAAAAAAATAA
1 AAATAA-ATAAATA-AAATAAATAA
* *
636572 AAAGAAAAAAATAAAATAAAT-A
1 AAATAAATAAATAAAATAAATAA
*
636594 AAATAAATAAATAAGATAA
1 AAATAAATAAATAAAATAA
636613 GGAAAAAAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
22 17 0.50
23 7 0.21
24 5 0.15
25 5 0.15
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (23 bp):
AAATAAATAAATAAAATAAATAA
Found at i:636671 original size:2 final size:2
Alignment explanation
Indices: 636664--636722 Score: 84
Period size: 2 Copynumber: 29.5 Consensus size: 2
636654 GAAAAAGGAA
*
636664 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AA
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
636705 AT AA ACT AT AT AT AT AT A
1 AT AT A-T AT AT AT AT AT A
636723 CAACAAATAT
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
1 1 0.02
2 49 0.96
3 1 0.02
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:642515 original size:106 final size:106
Alignment explanation
Indices: 642279--643120 Score: 1086
Period size: 106 Copynumber: 8.0 Consensus size: 106
642269 ATATCGCGCC
* * * *
642279 ACTCGAGACAACACAAGCTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACCACTTT-T
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAA-CAATTTCC
* *
642343 CAGTTTCATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
65 CA--AT--TTCAGAGCCAATTTCAACTTCACAGCGAAAGATATTGG
* *
642389 ACTCGGGACAGCACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTCCC
* *
642454 AATTTCAGAGCCAATTTCAACTTCACATCGAAAGATGTTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAAGATATTGG
* * *
642495 ACTCGGGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAATAATTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTCCC
*
642560 AATTTCAGAGTCAATTTCAACTTCACAGC-AAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAA-GATATTGG
* * *
642601 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAATAAACAATCTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTCCC
*
642666 AATTTCAGAG-C-----CAA--T---AGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAAGATATTGG
* *
642696 ACTCGAGACGACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAATAATTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTCCC
* * * *
642761 AATTTCAGGGTCAATTTCAACTTCACATCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAAGATATTGG
*
642802 ACTCGAGAC--CACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAATAATTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTCCC
*
642865 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAAGATATTGG
** *
642906 ACTCGAGATGACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTCCC
* * * *
642971 AATTTCATG-GTCAATTTCAACTTCACATCGAAGGATATTAG
66 AATTTCA-GAGCCAATTTCAACTTCACAGCGAAAGATATTGG
* * ** * ** * *
643012 ACTCAAGACAGCACAAACTCAACTTCACAACGAAGGGGCGGTTGGCTGTCAACAAACAATTTTCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTCCC
* * * * *
643077 AGTTCCAGAGCCAATTTCAACTTCACGGCGGAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAAGATATTGG
643118 ACT
1 ACT
643121 AGGAACAATA
Statistics
Matches: 658, Mismatches: 56, Indels: 40
0.87 0.07 0.05
Matches are distributed among these distances:
95 80 0.12
96 3 0.00
98 1 0.00
100 3 0.00
101 3 0.00
103 1 0.00
104 100 0.15
105 5 0.01
106 401 0.61
107 1 0.00
108 1 0.00
109 5 0.01
110 54 0.08
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (106 bp):
ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAAGATATTGG
Found at i:642930 original size:305 final size:306
Alignment explanation
Indices: 642374--643120 Score: 1059
Period size: 305 Copynumber: 2.4 Consensus size: 306
642364 TCAACTTCAC
*
642374 AGCGAAGGATATTGGACTCGGGACAGCACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTC
1 AGCGAAGGATATTGGACTCGAGACAGCACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTC
* *
642439 AACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACATCGAAAGATGTTGGACTCGGGAC
66 AACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACATCGAAAGATATTGGACTCGAGAC
*
642504 AACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAATAATTTCCCAATTTCAGA
131 -ACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAATAATTTCCCAATTTCAGA
*
642569 GTCAATTTCAACTTCACAGCAAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACAACGA
195 GCCAATTTCAACTTCACAGCAAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACAACGA
*
642634 AGGGACGACTGGTTGTCAATAAACAATCTCCCAATTTCAGAGCCAAT
260 AGGGACGACTGGTTGTCAACAAACAATCTCCCAATTTCAGAGCCAAT
642681 AGCGAAGGATATTGGACTCGAGAC-GACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGT
1 AGCGAAGGATATTGGACTCGAGACAG-CACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGT
* * * *
642745 CAACAAATAATTTCCCAATTTCAGGGTCAATTTCAACTTCACATCGAAGGATATTGGACTCGAGA
65 CAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACATCGAAAGATATTGGACTCGAGA
642810 C-CACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAATAATTTCCCAATTTCAGA
130 CACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAATAATTTCCCAATTTCAGA
* * **
642874 GCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGATGACACAAGTTCAACTTCACAACGA
195 GCCAATTTCAACTTCACAGCAAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACAACGA
* *
642939 AGGGACGGCTGGTTGTCAACAAACAATTTCCCAATTTCATG-GTCAATTTCAACTT
260 AGGGACGACTGGTTGTCAACAAACAATCTCCCAATTTCA-GAG-C-----CAA--T
* * * ** * ** *
642994 CACATCGAAGGATATTAGACTCAAGACAGCACAAACTCAACTTCACAACGAAGGGGCGGTTGGCT
1 ---AGCGAAGGATATTGGACTCGAGACAGCACAAGTTCAACTTCACAACGAAGGGACGACTGGTT
* * * ** * *
643059 GTCAACAAACAATTTTCCAGTTCCAGAGCCAATTTCAACTTCACGGCGGAGGATATTGGACT
63 GTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACATCGAAAGATATTGGACT
643121 AGGAACAATA
Statistics
Matches: 392, Mismatches: 34, Indels: 19
0.88 0.08 0.04
Matches are distributed among these distances:
305 159 0.41
306 3 0.01
307 121 0.31
311 3 0.01
313 1 0.00
316 104 0.27
317 1 0.00
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.23
Consensus pattern (306 bp):
AGCGAAGGATATTGGACTCGAGACAGCACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTC
AACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACATCGAAAGATATTGGACTCGAGAC
ACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAATAATTTCCCAATTTCAGAG
CCAATTTCAACTTCACAGCAAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACAACGAA
GGGACGACTGGTTGTCAACAAACAATCTCCCAATTTCAGAGCCAAT
Found at i:642957 original size:210 final size:211
Alignment explanation
Indices: 642681--643120 Score: 702
Period size: 210 Copynumber: 2.1 Consensus size: 211
642671 CAGAGCCAAT
642681 AGCGAAGGATATTGGACTCGAGACGACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTC
1 AGCGAAGGATATTGGACTCGAGACGACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTC
* * *
642746 AACAAATAATTTCCCAATTTCAGGGTCAATTTCAACTTCACATCGAAGGATATTGGACTCGAGAC
66 AACAAACAATTTCCCAATTTCAGGGTCAATTTCAACTTCACATCGAAGGATATTAGACTCAAGAC
** * * *
642811 -CACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAATAATTTCCCAATTTCAGAG
131 ACACAAACTCAACTTCACAACGAAGGGACGACTGGCTGTCAACAAACAATTTCCCAATTCCAGAG
642875 CCAATTTCAACTTCAC
196 CCAATTTCAACTTCAC
* *
642891 AGCGAAGGATATTGGACTCGAGATGACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTC
1 AGCGAAGGATATTGGACTCGAGACGACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTC
*
642956 AACAAACAATTTCCCAATTTCATGGTCAATTTCAACTTCACATCGAAGGATATTAGACTCAAGAC
66 AACAAACAATTTCCCAATTTCAGGGTCAATTTCAACTTCACATCGAAGGATATTAGACTCAAGAC
* ** * *
643021 AGCACAAACTCAACTTCACAACGAAGGGGCGGTTGGCTGTCAACAAACAATTTTCCAGTTCCAGA
131 A-CACAAACTCAACTTCACAACGAAGGGACGACTGGCTGTCAACAAACAATTTCCCAATTCCAGA
643086 GCCAATTTCAACTTCAC
195 GCCAATTTCAACTTCAC
* *
643103 GGCGGAGGATATTGGACT
1 AGCGAAGGATATTGGACT
643121 AGGAACAATA
Statistics
Matches: 210, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
210 124 0.59
212 86 0.41
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (211 bp):
AGCGAAGGATATTGGACTCGAGACGACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTC
AACAAACAATTTCCCAATTTCAGGGTCAATTTCAACTTCACATCGAAGGATATTAGACTCAAGAC
ACACAAACTCAACTTCACAACGAAGGGACGACTGGCTGTCAACAAACAATTTCCCAATTCCAGAG
CCAATTTCAACTTCAC
Found at i:643047 original size:411 final size:414
Alignment explanation
Indices: 642279--643091 Score: 1240
Period size: 411 Copynumber: 2.0 Consensus size: 414
642269 ATATCGCGCC
* * *
642279 ACTCGAGACAACACAAGCTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACCACTTTTC
1 ACTCGAGACAACACAAGCTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACCAATTTCC
* *
642344 AGTTTCATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGGGACAGCACAAGTTC
66 AG-AT-ATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACA-CACAAGTTC
642409 AACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAA
128 AACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAA
* * *
642474 CTTCACATCGAAAGATGTTGGACTCGGGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTG
193 CTTCACAGCGAAAGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTG
* *
642539 GTTGTCAACAAATAATTTCCCAATTTCAGAGTCAATTTCAACTTCACAGCAAAGGATATTGGACT
258 GTTGTCAACAAACAATTTCCCAATTTCAGAGTCAATTTCAACTTCACAGCAAAGGATATTAGACT
** * *
642604 CAAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAATAAACAATCTCCCAAT
323 CAAGACAACACAAACTCAACTTCACAACGAAGGGACGACTGGCTGTCAACAAACAATCTCCCAAT
*
642669 TTCAGAGCCAATAGCGAAGGATATTGG
388 TCCAGAGCCAATAGCGAAGGATATTGG
* * *
642696 ACTCGAGACGACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAA-TAATTTCC
1 ACTCGAGACAACACAAGCTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACCAATTT-C
* * *
642760 CA-AT-TTCAGGGTCAATTTCAACTTCACATCGAAGGATATTGGACTCGAGAC-CACAAGTTCAA
65 CAGATATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACACACAAGTTCAA
*
642822 CTTCACAACGAAGGGACGACTGGTTGTCAACAAATAATTTCCCAATTTCAGAGCCAATTTCAACT
130 CTTCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACT
* **
642887 TCACAGCGAAGGATATTGGACTCGAGATGACACAAGTTCAACTTCACAACGAAGGGACGGCTGGT
195 TCACAGCGAAAGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGT
* *
642952 TGTCAACAAACAATTTCCCAATTTCATG-GTCAATTTCAACTTCACATCGAAGGATATTAGACTC
260 TGTCAACAAACAATTTCCCAATTTCA-GAGTCAATTTCAACTTCACAGCAAAGGATATTAGACTC
* * ** * * *
643016 AAGACAGCACAAACTCAACTTCACAACGAAGGGGCGGTTGGCTGTCAACAAACAATTTTCCAGTT
324 AAGACAACACAAACTCAACTTCACAACGAAGGGACGACTGGCTGTCAACAAACAATCTCCCAATT
643081 CCAGAGCCAAT
389 CCAGAGCCAAT
643092 TTCAACTTCA
Statistics
Matches: 360, Mismatches: 34, Indels: 10
0.89 0.08 0.02
Matches are distributed among these distances:
411 256 0.71
412 1 0.00
413 43 0.12
415 1 0.00
416 4 0.01
417 55 0.15
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.23
Consensus pattern (414 bp):
ACTCGAGACAACACAAGCTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACCAATTTCC
AGATATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACACACAAGTTCAAC
TTCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTT
CACAGCGAAAGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTT
GTCAACAAACAATTTCCCAATTTCAGAGTCAATTTCAACTTCACAGCAAAGGATATTAGACTCAA
GACAACACAAACTCAACTTCACAACGAAGGGACGACTGGCTGTCAACAAACAATCTCCCAATTCC
AGAGCCAATAGCGAAGGATATTGG
Found at i:644054 original size:18 final size:17
Alignment explanation
Indices: 644015--644057 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
644005 ATTATATGGA
644015 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
644031 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
644049 TATTATTAT
1 TATTATTAT
644058 ACGTATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:644601 original size:2 final size:2
Alignment explanation
Indices: 644594--644629 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
644584 TACTTTGATG
644594 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
644630 ATTATTACTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:644689 original size:14 final size:14
Alignment explanation
Indices: 644643--644703 Score: 52
Period size: 14 Copynumber: 4.2 Consensus size: 14
644633 ATTACTTTAC
644643 TATTTTTTTCCTTATCT
1 TATTTTTTT-CTT-T-T
* *
644660 TATTTATTT-ATTT
1 TATTTTTTTCTTTT
644673 TATTTTTTTCTTTT
1 TATTTTTTTCTTTT
* *
644687 TATTTTATTCTCTT
1 TATTTTTTTCTTTT
644701 TAT
1 TAT
644704 CTTATTTGTT
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
13 9 0.24
14 19 0.51
15 1 0.03
17 8 0.22
ACGTcount: A:0.15, C:0.10, G:0.00, T:0.75
Consensus pattern (14 bp):
TATTTTTTTCTTTT
Found at i:644813 original size:13 final size:13
Alignment explanation
Indices: 644795--644819 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
644785 ATTGAGATCG
644795 TATTTTTAACTTT
1 TATTTTTAACTTT
644808 TATTTTTAACTT
1 TATTTTTAACTT
644820 ATAATTTTCT
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:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (13 bp):
TATTTTTAACTTT
Found at i:645361 original size:14 final size:14
Alignment explanation
Indices: 645330--645380 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
645320 AGTTTAAAGC
*
645330 CCAAAATT-TTATT
1 CCAAAATTATTAAT
645343 CCAAAATTATTAAT
1 CCAAAATTATTAAT
* ** *
645357 CCAAAGTTAAAAAC
1 CCAAAATTATTAAT
645371 CCAAAATTAT
1 CCAAAATTAT
645381 AGCTCATTTC
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
13 8 0.27
14 22 0.73
ACGTcount: A:0.49, C:0.18, G:0.02, T:0.31
Consensus pattern (14 bp):
CCAAAATTATTAAT
Found at i:648899 original size:7 final size:7
Alignment explanation
Indices: 648887--648920 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
648877 GTATGAATCC
648887 TCCATAG
1 TCCATAG
648894 TCCATAG
1 TCCATAG
648901 TCCATAG
1 TCCATAG
648908 TCCATAG
1 TCCATAG
648915 TCCATA
1 TCCATA
648921 CCACTTATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.29
Consensus pattern (7 bp):
TCCATAG
Found at i:650546 original size:20 final size:20
Alignment explanation
Indices: 650486--650549 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
650476 AAATAACCAA
* *
650486 CAAATTCGTAACGCGAACTC
1 CAAATTCGTAACGCGAATTT
* * * *
650506 CAATTTCGCAACAC-AGTTTT
1 CAAATTCGTAACGCGA-ATTT
650526 CAAATTCGTAACGCGAATTT
1 CAAATTCGTAACGCGAATTT
650546 CAAA
1 CAAA
650550 AATTCACAAC
Statistics
Matches: 32, Mismatches: 10, Indels: 4
0.70 0.22 0.09
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.36, C:0.25, G:0.12, T:0.27
Consensus pattern (20 bp):
CAAATTCGTAACGCGAATTT
Found at i:650588 original size:21 final size:21
Alignment explanation
Indices: 650535--650588 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
650525 TCAAATTCGT
650535 AACGCGAATTTCAAAAATTCAC
1 AACGC-AATTTCAAAAATTCAC
* * *
650557 AACTCAGTTTCAGAAA-TCAC
1 AACGCAATTTCAAAAATTCAC
650577 AACGCAAATTTC
1 AACGC-AATTTC
650589 TTTTTTGCAA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 8 0.31
21 14 0.54
22 4 0.15
ACGTcount: A:0.43, C:0.24, G:0.09, T:0.24
Consensus pattern (21 bp):
AACGCAATTTCAAAAATTCAC
Found at i:650707 original size:77 final size:78
Alignment explanation
Indices: 650576--650722 Score: 242
Period size: 77 Copynumber: 1.9 Consensus size: 78
650566 TCAGAAATCA
* *
650576 CAACGCAAATTTCTTTTTTGCAACGCGATTTTCCAAATTCGCAACGCTAATTACCGATATAGGTA
1 CAACGCAAATTTCGTTTTCGCAACGCGATTTTCCAAATTCGCAACGCTAATTACCGATATAGGTA
650641 AACACAACTATCG
66 AACACAACTATCG
* * *
650654 CAACGCGAATTTCGTTTTCGCAATGCGATTTT-CAAATTCGCATCGCTAATTACCGATATAGGTA
1 CAACGCAAATTTCGTTTTCGCAACGCGATTTTCCAAATTCGCAACGCTAATTACCGATATAGGTA
650718 AACAC
66 AACAC
650723 GGTAGAAAAA
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
77 36 0.56
78 28 0.44
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (78 bp):
CAACGCAAATTTCGTTTTCGCAACGCGATTTTCCAAATTCGCAACGCTAATTACCGATATAGGTA
AACACAACTATCG
Found at i:651163 original size:20 final size:21
Alignment explanation
Indices: 651138--651182 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
651128 GGTAATTAGC
*
651138 GTTGCGAATTT-TAAAATCGA
1 GTTGCGAATTTGGAAAATCGA
*
651158 GTTGCGAATTTGGAAAATCGC
1 GTTGCGAATTTGGAAAATCGA
651179 GTTG
1 GTTG
651183 TGAAAAAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.29, C:0.11, G:0.27, T:0.33
Consensus pattern (21 bp):
GTTGCGAATTTGGAAAATCGA
Found at i:651179 original size:78 final size:78
Alignment explanation
Indices: 651035--651182 Score: 183
Period size: 78 Copynumber: 1.9 Consensus size: 78
651025 TTTTTCTACC
* * * *
651035 GTATTTACCTATATCGGTAATTAAGTTGCGAAATTGGCGAATTCGATTTGCGAAATCGAAATTCG
1 GTATTTACCTATATCGGTAATTAAGTTGCGAAATTGGCAAAATCGAGTTGCGAAATCGAAAATCG
651100 CGTTGAGATAGTT
66 CGTTGAGATAGTT
* ** * *
651113 GTATTTACCTATATCGGTAATTAGCGTTGCG-AATT-TTAAAATCGAGTTGCGAATTTGGAAAAT
1 GTATTTACCTATATCGGTAATTA-AGTTGCGAAATTGGCAAAATCGAGTTGCGAA-ATCGAAAAT
651176 CGCGTTG
64 CGCGTTG
651183 TGAAAAAGAA
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
77 13 0.22
78 40 0.68
79 6 0.10
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.35
Consensus pattern (78 bp):
GTATTTACCTATATCGGTAATTAAGTTGCGAAATTGGCAAAATCGAGTTGCGAAATCGAAAATCG
CGTTGAGATAGTT
Found at i:652736 original size:23 final size:23
Alignment explanation
Indices: 652692--652736 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
652682 TAAACAATAG
*
652692 AAAACGTACCATAAAAGTATAAA
1 AAAACGTACCATAAAAGCATAAA
* *
652715 AAAATGTACCATAAAGGCATAA
1 AAAACGTACCATAAAAGCATAA
652737 GAAGACATGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.58, C:0.13, G:0.11, T:0.18
Consensus pattern (23 bp):
AAAACGTACCATAAAAGCATAAA
Found at i:654582 original size:25 final size:23
Alignment explanation
Indices: 654541--654611 Score: 69
Period size: 22 Copynumber: 3.1 Consensus size: 23
654531 CAATTTGTAT
654541 ATAATTTTA-GGATTAATTAATATTA
1 ATAATTTTATGGATTAA-T-A-ATTA
*
654566 AT-ATTTTATGTATTAATAATTA
1 ATAATTTTATGGATTAATAATTA
654588 ATAATTTTAT--ATTAAGTAATTA
1 ATAATTTTATGGATTAA-TAATTA
654610 AT
1 AT
654612 TAGTACTTAT
Statistics
Matches: 42, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
21 5 0.12
22 14 0.33
23 8 0.19
24 7 0.17
25 8 0.19
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.51
Consensus pattern (23 bp):
ATAATTTTATGGATTAATAATTA
Found at i:654587 original size:22 final size:21
Alignment explanation
Indices: 654556--654611 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 21
654546 TTTAGGATTA
654556 ATTAAT-ATTAAT-ATTTTATGT
1 ATTAATAATTAATAATTTTA--T
654577 ATTAATAATTAATAATTTTAT
1 ATTAATAATTAATAATTTTAT
654598 ATTAAGTAATTAAT
1 ATTAA-TAATTAAT
654612 TAGTACTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
21 12 0.38
22 14 0.44
23 6 0.19
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.52
Consensus pattern (21 bp):
ATTAATAATTAATAATTTTAT
Found at i:663652 original size:9 final size:9
Alignment explanation
Indices: 663638--663677 Score: 71
Period size: 9 Copynumber: 4.4 Consensus size: 9
663628 TTTTTTTTCA
663638 AAAAAAACC
1 AAAAAAACC
663647 AAAAAAACC
1 AAAAAAACC
663656 AAAAAAACC
1 AAAAAAACC
*
663665 AAAAAAGCC
1 AAAAAAACC
663674 AAAA
1 AAAA
663678 TTTCAAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 30 1.00
ACGTcount: A:0.78, C:0.20, G:0.03, T:0.00
Consensus pattern (9 bp):
AAAAAAACC
Found at i:673450 original size:19 final size:19
Alignment explanation
Indices: 673426--673464 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
673416 TTCACTCTCG
673426 CGCCAGGACAAAGAGACGT
1 CGCCAGGACAAAGAGACGT
673445 CGCCAGGACAAAGAGACGT
1 CGCCAGGACAAAGAGACGT
673464 C
1 C
673465 TCGACACACC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.28, G:0.31, T:0.05
Consensus pattern (19 bp):
CGCCAGGACAAAGAGACGT
Found at i:675854 original size:16 final size:15
Alignment explanation
Indices: 675835--675918 Score: 66
Period size: 16 Copynumber: 5.5 Consensus size: 15
675825 AACATAAAAG
675835 AATAAAATAAAGACAA
1 AATAAAATAAAGA-AA
*
675851 AATAGAATAAA-AAA
1 AATAAAATAAAGAAA
*
675865 ACAAAGAAATAAAGAAA
1 A-ATA-AAATAAAGAAA
675882 AATAAAATAAA-AATA
1 AATAAAATAAAGAA-A
* *
675897 AAAATAAATAAA-ATA
1 AATA-AAATAAAGAAA
675912 AATAAAA
1 AATAAAA
675919 GAATAAAATA
Statistics
Matches: 56, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
14 8 0.14
15 18 0.32
16 26 0.46
17 4 0.07
ACGTcount: A:0.79, C:0.02, G:0.05, T:0.14
Consensus pattern (15 bp):
AATAAAATAAAGAAA
Found at i:675874 original size:21 final size:19
Alignment explanation
Indices: 675833--675918 Score: 54
Period size: 21 Copynumber: 4.5 Consensus size: 19
675823 TGAACATAAA
*
675833 AGAATAAAATAAAGACAAAAT
1 AGAATAAAA-AAA-AAAAAAT
675854 AGAATAAAAAAACAAAGAAAT
1 AGAATAAAAAAA-AAA-AAAT
* * *
675875 A-AAGAAAAATAAAATAA-
1 AGAATAAAAAAAAAAAAAT
*
675892 A-AATAAAAATAAATAAAAT
1 AGAATAAAAA-AAAAAAAAT
675911 A-AATAAAA
1 AGAATAAAA
675919 GAATAAAATA
Statistics
Matches: 53, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
17 8 0.15
18 7 0.13
19 11 0.21
20 13 0.25
21 14 0.26
ACGTcount: A:0.78, C:0.02, G:0.06, T:0.14
Consensus pattern (19 bp):
AGAATAAAAAAAAAAAAAT
Found at i:675891 original size:31 final size:31
Alignment explanation
Indices: 675839--675918 Score: 101
Period size: 31 Copynumber: 2.6 Consensus size: 31
675829 TAAAAGAATA
*
675839 AAATAAAGACAAAATAGAATAAAAA-AACAAAG
1 AAATAAAGA-AAAATAAAATAAAAATAA-AAAG
*
675871 AAATAAAGAAAAATAAAATAAAAATAAAAAT
1 AAATAAAGAAAAATAAAATAAAAATAAAAAG
*
675902 AAATAAA-ATAAATAAAA
1 AAATAAAGAAAAATAAAA
675919 GAATAAAATA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
30 9 0.20
31 24 0.55
32 11 0.25
ACGTcount: A:0.79, C:0.03, G:0.05, T:0.14
Consensus pattern (31 bp):
AAATAAAGAAAAATAAAATAAAAATAAAAAG
Found at i:675899 original size:17 final size:17
Alignment explanation
Indices: 675879--675926 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
675869 AGAAATAAAG
675879 AAAAATAAAATAAAAAT
1 AAAAATAAAATAAAAAT
675896 AAAAAT-AAAT-AAAAT
1 AAAAATAAAATAAAAAT
675911 AAATAA-AAGAATAAAA
1 AAA-AATAA-AATAAAA
675927 TAGGATGAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 8 0.30
16 7 0.26
17 9 0.33
18 3 0.11
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (17 bp):
AAAAATAAAATAAAAAT
Found at i:675923 original size:21 final size:21
Alignment explanation
Indices: 675871--675925 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
675861 AAAAACAAAG
675871 AAAT-AAAGAA-AAATAAAAT
1 AAATAAAAGAATAAATAAAAT
*
675890 AAA-AATAAAAATAAATAAAAT
1 AAATAA-AAGAATAAATAAAAT
675911 AAATAAAAGAATAAA
1 AAATAAAAGAATAAA
675926 ATAGGATGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
19 4 0.13
20 4 0.13
21 20 0.67
22 2 0.07
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (21 bp):
AAATAAAAGAATAAATAAAAT
Found at i:675928 original size:5 final size:5
Alignment explanation
Indices: 675835--675918 Score: 59
Period size: 5 Copynumber: 16.4 Consensus size: 5
675825 AACATAAAAG
* * *
675835 AATAA AATAA AGACAA AATAG AATAA AA-AA ACAAAGA AATAA AGA-AA
1 AATAA AATAA A-ATAA AATAA AATAA AATAA A-ATA-A AATAA A-ATAA
675882 AATAA AATAAA AATAA AA-ATA AATAA AAT-A AATAA AA
1 AATAA AAT-AA AATAA AATA-A AATAA AATAA AATAA AA
675919 GAATAAAATA
Statistics
Matches: 64, Mismatches: 5, Indels: 20
0.72 0.06 0.22
Matches are distributed among these distances:
4 9 0.14
5 39 0.61
6 14 0.22
7 2 0.03
ACGTcount: A:0.79, C:0.02, G:0.05, T:0.14
Consensus pattern (5 bp):
AATAA
Found at i:675963 original size:2 final size:2
Alignment explanation
Indices: 675951--676031 Score: 132
Period size: 2 Copynumber: 42.0 Consensus size: 2
675941 ACGAAAGAAG
675951 AT AT A- AT AT AT AT AT AT AT AT AT AT AT -T 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
*
675991 A- AT AT AT AT AT AT AT AT AT AG 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
676032 GTATGTATTA
Statistics
Matches: 74, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
1 3 0.04
2 71 0.96
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (2 bp):
AT
Found at i:676756 original size:302 final size:297
Alignment explanation
Indices: 676188--676785 Score: 1076
Period size: 302 Copynumber: 2.0 Consensus size: 297
676178 ACGGGTATGT
*
676188 AAAAACTATAATATATATATAATTATAATGTAAATATAAAAAACGGAAATTAAAATTAAGATTCA
1 AAAAACTATAATATATATAAAATTATAATGTAAATATAAAAAACGGAAATTAAAATTAAGATTCA
676253 GAAAAGGACCAATTTGTAAAAAGAAAAAATTGAGTGACAGAATTCAAATCATTTCGAAGAGAATC
66 GAAAAGGACCAATTTGTAAAAAGAAAAAATTGAGTGACAGAATTCAAATCATTTCGAAGAGAATC
676318 TGAAATTGTAGGGGTAAATTAAGGCCTTTATGAGGAGACCAAATGCGGGATTAACCCATTAAATA
131 TGAAATTGTAGGGGTAAATTAAGGCCTTTATGAGGAGACCAAATGCGGGATTAACCCATTAAATA
*
676383 TCAAAAACACGGGGGTCTGAGAGATTAAATGGGTCGGGTCACAGTCTGATGGGCTGACTATTTAA
196 TCAAAAACACGCGGGTCTGAGAGATTAAATGGGTCGGGTCACAGTCTGATGGGCTGACTATTTAA
676448 ACCATTTTTTTTGAAAACCTTTATTTCTCTCTTCTTA
261 ACCATTTTTTTTGAAAACCTTTATTTCTCTCTTCTTA
*
676485 AAAAACTA-AATATATATAAAATTATAATGTATATATAAAAAACGGAAAATTAAAATTAAGATTC
1 AAAAACTATAATATATATAAAATTATAATGTAAATATAAAAAACGG-AAATTAAAATTAAGATTC
676549 AGAAAAAGGACCAATTTGTAAAAA-AGAAAAA-TGAGTGACAGAATTCAAATCATTTCGAAGAGA
65 AG-AAAAGGACCAATTTGTAAAAAGA-AAAAATTGAGTGACAGAATTCAAATCATTTCGAAGAGA
676612 ATCTGAAATTGTAGGGGTAAATTAAGGCCTTTATGAATGAGGAGGACCAAATGCGGGATTAACCC
128 ATCTGAAATTGTAGGGGTAAATTAAGGCC-TT-T--ATGAGGA-GACCAAATGCGGGATTAACCC
676677 ATTAAATATCAAAAACACGCGGGTCTGAGAGATTAAATGGGTCGGGTCACAGTCTGATGGGCTGA
188 ATTAAATATCAAAAACACGCGGGTCTGAGAGATTAAATGGGTCGGGTCACAGTCTGATGGGCTGA
676742 CTATTTAAACCATTTTTTTTGAAAACCTTTATTTCTCTCTTCTT
253 CTATTTAAACCATTTTTTTTGAAAACCTTTATTTCTCTCTTCTT
676786 CCCACGAGAG
Statistics
Matches: 290, Mismatches: 3, Indels: 11
0.95 0.01 0.04
Matches are distributed among these distances:
296 35 0.12
297 90 0.31
298 28 0.10
299 1 0.00
301 7 0.02
302 129 0.44
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (297 bp):
AAAAACTATAATATATATAAAATTATAATGTAAATATAAAAAACGGAAATTAAAATTAAGATTCA
GAAAAGGACCAATTTGTAAAAAGAAAAAATTGAGTGACAGAATTCAAATCATTTCGAAGAGAATC
TGAAATTGTAGGGGTAAATTAAGGCCTTTATGAGGAGACCAAATGCGGGATTAACCCATTAAATA
TCAAAAACACGCGGGTCTGAGAGATTAAATGGGTCGGGTCACAGTCTGATGGGCTGACTATTTAA
ACCATTTTTTTTGAAAACCTTTATTTCTCTCTTCTTA
Found at i:677402 original size:17 final size:19
Alignment explanation
Indices: 677380--677415 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
677370 ATCTGTTCTA
677380 GGGTTT-CAA-ACCGGGTT
1 GGGTTTCCAAGACCGGGTT
677397 GGGTTTCCAAGACCGGGTT
1 GGGTTTCCAAGACCGGGTT
677416 TGCTGAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 3 0.18
19 8 0.47
ACGTcount: A:0.17, C:0.19, G:0.36, T:0.28
Consensus pattern (19 bp):
GGGTTTCCAAGACCGGGTT
Found at i:684554 original size:18 final size:17
Alignment explanation
Indices: 684511--684556 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 17
684501 AAAAGAATAA
* *
684511 AAATAAAGACAAAATAG
1 AAATAAAGATAAAAAAG
684528 -AAT-AAGATAAACAAAG
1 AAATAAAGATAAA-AAAG
684544 AAATAAAGATAAA
1 AAATAAAGATAAA
684557 TAAATAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
15 7 0.29
16 6 0.25
17 3 0.12
18 8 0.33
ACGTcount: A:0.72, C:0.04, G:0.11, T:0.13
Consensus pattern (17 bp):
AAATAAAGATAAAAAAG
Found at i:684637 original size:2 final size:2
Alignment explanation
Indices: 684630--684700 Score: 126
Period size: 2 Copynumber: 36.0 Consensus size: 2
684620 GGAAAAGAAG
684630 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
684672 AT AT AT AT AT -T AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
684701 TAGCTTGTGG
Statistics
Matches: 66, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
1 1 0.02
2 65 0.98
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (2 bp):
AT
Found at i:691181 original size:2 final size:2
Alignment explanation
Indices: 691176--691210 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
691166 AAAAAATGGT
691176 TA TA TA 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 TA TA TA T
691211 TGTACTCCCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:697843 original size:18 final size:18
Alignment explanation
Indices: 697820--697854 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
697810 TATTATTCAA
697820 AAATTCTCAAAAAAATCT
1 AAATTCTCAAAAAAATCT
*
697838 AAATTCTCAAAAGAATC
1 AAATTCTCAAAAAAATC
697855 CCAAAATCGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.17, G:0.03, T:0.26
Consensus pattern (18 bp):
AAATTCTCAAAAAAATCT
Found at i:698012 original size:21 final size:20
Alignment explanation
Indices: 697978--698018 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
697968 CTCAAGATCC
* *
697978 CTAAACTCAAATCCTTAAAT
1 CTAAACCCAAATCCCTAAAT
697998 CTAAACCCTAAATCCCTAAAT
1 CTAAACCC-AAATCCCTAAAT
698019 TTCAACACCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.44, C:0.29, G:0.00, T:0.27
Consensus pattern (20 bp):
CTAAACCCAAATCCCTAAAT
Found at i:705852 original size:15 final size:16
Alignment explanation
Indices: 705821--705855 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
705811 TGATATGCTC
705821 CGCATACCTGAAGGTT
1 CGCATACCTGAAGGTT
*
705837 CGCATAGCTG-AGGTT
1 CGCATACCTGAAGGTT
705852 CGCA
1 CGCA
705856 AGTAGTAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.23, C:0.26, G:0.29, T:0.23
Consensus pattern (16 bp):
CGCATACCTGAAGGTT
Found at i:706384 original size:39 final size:39
Alignment explanation
Indices: 706320--706435 Score: 173
Period size: 39 Copynumber: 3.0 Consensus size: 39
706310 GAAGAGTATG
*
706320 TGTTCGTCAAACTTGCA-GTTGCATCATTTGTTGAAATTC
1 TGTTGGTCAAACTTGCAGGTT-CATCATTTGTTGAAATTC
*
706359 TGTTGGTCAAACTTGCAGGTTCATCATTTGTTGAAATTT
1 TGTTGGTCAAACTTGCAGGTTCATCATTTGTTGAAATTC
*
706398 TGTTGGTCAAACTTGTC-GGTGCATCATTTGTTGAAATT
1 TGTTGGTCAAACTTG-CAGGTTCATCATTTGTTGAAATT
706436 GGTTGCAAAA
Statistics
Matches: 72, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
39 68 0.94
40 4 0.06
ACGTcount: A:0.22, C:0.15, G:0.21, T:0.42
Consensus pattern (39 bp):
TGTTGGTCAAACTTGCAGGTTCATCATTTGTTGAAATTC
Found at i:706945 original size:16 final size:16
Alignment explanation
Indices: 706912--706945 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
706902 TTACTATTCA
* *
706912 TGTGAATAGTTAATTT
1 TGTGAATAGTAAAATT
706928 TGTGAATAGTAAAATT
1 TGTGAATAGTAAAATT
706944 TG
1 TG
706946 GTCGGCGATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.21, T:0.44
Consensus pattern (16 bp):
TGTGAATAGTAAAATT
Found at i:709451 original size:22 final size:22
Alignment explanation
Indices: 709423--709483 Score: 95
Period size: 22 Copynumber: 2.8 Consensus size: 22
709413 CGAGGGTTTC
*
709423 ATAGGTCCTTCGGGACATACTT
1 ATAGGTCATTCGGGACATACTT
*
709445 ATAGGTCATTCGGGACATATTT
1 ATAGGTCATTCGGGACATACTT
*
709467 ATAGGTTATTCGGGACA
1 ATAGGTCATTCGGGACA
709484 AATCTCATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (22 bp):
ATAGGTCATTCGGGACATACTT
Found at i:720867 original size:22 final size:22
Alignment explanation
Indices: 720839--720915 Score: 91
Period size: 22 Copynumber: 3.5 Consensus size: 22
720829 GTCGAGGGTT
*
720839 TCATAGGTCCTTCGGGACATAC
1 TCATAGGTCATTCGGGACATAC
* *
720861 TCATAGGTCTTTCGGGACATAT
1 TCATAGGTCATTCGGGACATAC
* *
720883 TCATAGGTCATTCGGAACAAATC
1 TCATAGGTCATTCGGGACATA-C
*
720906 TCATATGTCA
1 TCATAGGTCA
720916 CTCAGTGGGA
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
22 38 0.81
23 9 0.19
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.31
Consensus pattern (22 bp):
TCATAGGTCATTCGGGACATAC
Found at i:723296 original size:16 final size:16
Alignment explanation
Indices: 723275--723305 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
723265 ATATAGGTTG
723275 AAGAAGAGCTTGTATT
1 AAGAAGAGCTTGTATT
723291 AAGAAGAGCTTGTAT
1 AAGAAGAGCTTGTAT
723306 GGTTTAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.06, G:0.26, T:0.29
Consensus pattern (16 bp):
AAGAAGAGCTTGTATT
Found at i:724488 original size:39 final size:39
Alignment explanation
Indices: 724441--724556 Score: 144
Period size: 39 Copynumber: 3.0 Consensus size: 39
724431 AGTGGGAAAT
*
724441 TGTTGGTCAAACTTGCAAGTGCATCATTTATTGAAATTC
1 TGTTGGTCAAACTTGCAAGTGCATCATTTGTTGAAATTC
* * *
724480 TGTTGGTCAAACTTGTAGGTGCATCATTTGTTGAAATTT
1 TGTTGGTCAAACTTGCAAGTGCATCATTTGTTGAAATTC
* * * *
724519 TATTGGTCTAACTTGC-CGATGCATCCTTTGTTGAAATT
1 TGTTGGTCAAACTTGCAAG-TGCATCATTTGTTGAAATT
724557 GGTTGCAAAA
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
38 1 0.01
39 66 0.99
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.41
Consensus pattern (39 bp):
TGTTGGTCAAACTTGCAAGTGCATCATTTGTTGAAATTC
Found at i:728061 original size:31 final size:31
Alignment explanation
Indices: 728023--728110 Score: 140
Period size: 31 Copynumber: 2.8 Consensus size: 31
728013 TACTACGTAA
*
728023 GCACCTAAAATTATAATGGTGAAAACATTAG
1 GCACCTAAAAGTATAATGGTGAAAACATTAG
*
728054 GCACCTAAAAGTGTAATGGTGAAAACATTAG
1 GCACCTAAAAGTATAATGGTGAAAACATTAG
* *
728085 ACACCTAAAAGTATAATGGAGAAAAC
1 GCACCTAAAAGTATAATGGTGAAAAC
728111 GCTAGACACT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 52 1.00
ACGTcount: A:0.47, C:0.14, G:0.18, T:0.22
Consensus pattern (31 bp):
GCACCTAAAAGTATAATGGTGAAAACATTAG
Found at i:728622 original size:2 final size:2
Alignment explanation
Indices: 728615--728639 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
728605 TTTATTTTAA
728615 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
728640 ATTTTAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:733581 original size:13 final size:13
Alignment explanation
Indices: 733563--733588 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
733553 TTACAGACGC
733563 GCATATGAAGACT
1 GCATATGAAGACT
733576 GCATATGAAGACT
1 GCATATGAAGACT
733589 TTTCAACTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.23
Consensus pattern (13 bp):
GCATATGAAGACT
Found at i:735545 original size:186 final size:185
Alignment explanation
Indices: 735068--735797 Score: 664
Period size: 186 Copynumber: 3.9 Consensus size: 185
735058 AATATTTTAG
** * **
735068 GTTGCACATAAAATGTTATCAAAATTTAAGCTGATGGGACCTTAGATATTCTCACAATAACAAAA
1 GTTGCAC-TAAAATGTTA-C-AGTTTTAAGCTGATGGGACCTTAGACATTCTCACGGTAACAAAA
* * * *
735133 TAAGTTAAAAGCTAAAAATGTTATAAATATTTATAAGAAAT-ACGGTTGCG-CCTAAGAATGTCA
63 TAAGTTAAAAGAT-AAAATGTTATAAATATCTATAAAAAATCA-GGTTGCGCCCAAAGAATGTCA
* * * * * * *
735196 TGATTTATTAAAAAAAATAGATTGCGATATGGAATCTTAA-TATTTTTATTAATAAAATTG-
126 TGGTTCACT-AAAAAAGTAGGTTGCGATATGGAATGTTAATTTTTTTTATTAATAAAA-TGA
* * * * *
735256 GTTGCGACT-AAA---T-CAGATTTTAAGTTGATAGTACCTTAAACATTCACACGGTAACAAAAT
1 GTTGC-ACTAAAATGTTACAG-TTTTAAGCTGATGGGACCTTAGACATTCTCACGGTAACAAAAT
* * * *
735316 AAGTTAAAA-ACTAAAATGTTATAAATACCTATAACAAATCAGGTTGCG-CTAAACAATGTCATG
64 AAGTTAAAAGA-TAAAATGTTATAAATATCTATAAAAAATCAGGTTGCGCCCAAAGAATGTCATG
*
735379 GTTCACTAAAAAAGTAGGTTGCGATCTGGAATGTTAATTTTTTTTATTAATAAAATGA
128 GTTCACTAAAAAAGTAGGTTGCGATATGGAATGTTAATTTTTTTTATTAATAAAATGA
* *
735437 GTTGCATCTAAAATGTTACCAGTGTTTAAGCTAATGGG-CCTTACACATTCTCACGGTAACAAAA
1 GTTGCA-CTAAAATGTTA-CAGT-TTTAAGCTGATGGGACCTTAGACATTCTCACGGTAACAAAA
* ** * *
735501 TAAATTAAAAGATAAAATAATATAAATATCTATAATAAATCAGGTTGCGCCC-AAGAATGTCATT
63 TAAGTTAAAAGATAAAATGTTATAAATATCTATAAAAAATCAGGTTGCGCCCAAAGAATGTCATG
* * * * *
735565 GTTCACTTATAAAGTAGGTTGTGATTTGGAATATTAAATTTTTTTTATTAATAAAATGA
128 GTTCACTAAAAAAGTAGGTTGCGATATGGAATGTT-AATTTTTTTTATTAATAAAATGA
* ** * * ** *
735624 GTTTCGC-CTAAAATGTTATCAGAATTTAATTTGATGGGACCCTAGACATTTTCATTGTAATAAA
1 G-TT-GCACTAAAATGTTA-CAG-TTTTAAGCTGATGGGACCTTAGACATTCTCACGGTAACAAA
* * * *
735688 ATAAGTTAAAAGCTAAAATGTTATGAATATCTATAAAAAAAATCAGGTTGTGCCCAAA-AATGTT
62 ATAAGTTAAAAGATAAAATGTTATAAATATCTAT--AAAAAATCAGGTTGCGCCCAAAGAATGTC
* * * * *
735752 ATCGG-TCGCTAAGAAAGTAGGTTGCAATATGAAATGTTAATATTTT
125 AT-GGTTCACTAAAAAAGTAGGTTGCGATATGGAATGTTAATTTTTT
735798 GTGTAATAAA
Statistics
Matches: 444, Mismatches: 73, Indels: 49
0.78 0.13 0.09
Matches are distributed among these distances:
180 29 0.07
181 71 0.16
182 49 0.11
184 1 0.00
185 1 0.00
186 107 0.24
187 67 0.15
188 56 0.13
189 11 0.02
190 49 0.11
191 3 0.01
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.34
Consensus pattern (185 bp):
GTTGCACTAAAATGTTACAGTTTTAAGCTGATGGGACCTTAGACATTCTCACGGTAACAAAATAA
GTTAAAAGATAAAATGTTATAAATATCTATAAAAAATCAGGTTGCGCCCAAAGAATGTCATGGTT
CACTAAAAAAGTAGGTTGCGATATGGAATGTTAATTTTTTTTATTAATAAAATGA
Found at i:736386 original size:67 final size:68
Alignment explanation
Indices: 736264--736398 Score: 175
Period size: 67 Copynumber: 2.0 Consensus size: 68
736254 TGTTATATAA
* * *
736264 AATTCGAAAGTATCGATACTTTGTGGAAAAGTTCAATACTTTACCGCCTTTTCATTTTTCAT-TT
1 AATTCGAAAATATCGATACTTTGTGGAAAAGTTCAATACTTTACAGCCTTCTCATTTTTCATGTT
736328 TTT
66 TTT
* ** * *
736331 AATTTGAAAATATCGATA-TTTGTGGAAAAGTATTTATACTTTGCATCCTTCTCATTTTTCATGT
1 AATTCGAAAATATCGATACTTTGTGGAAAAGT-TCAATACTTTACAGCCTTCTCATTTTTCATGT
736395 TTTT
65 TTTT
736399 CAAAAGATAT
Statistics
Matches: 58, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
66 13 0.22
67 40 0.69
68 5 0.09
ACGTcount: A:0.27, C:0.14, G:0.12, T:0.47
Consensus pattern (68 bp):
AATTCGAAAATATCGATACTTTGTGGAAAAGTTCAATACTTTACAGCCTTCTCATTTTTCATGTT
TTT
Found at i:737361 original size:13 final size:13
Alignment explanation
Indices: 737319--737363 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
737309 TATTTAGTAC
*
737319 TTTTTTATTGTAG
1 TTTTTTATTGTAA
* * *
737332 TTGTTTATTGGAC
1 TTTTTTATTGTAA
737345 TTTTTTATTGTAA
1 TTTTTTATTGTAA
737358 TTTTTT
1 TTTTTT
737364 TTATTATTTA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.16, C:0.02, G:0.13, T:0.69
Consensus pattern (13 bp):
TTTTTTATTGTAA
Found at i:741365 original size:12 final size:12
Alignment explanation
Indices: 741345--741378 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
741335 GTAACTCAAT
*
741345 AATTTTATTTAA
1 AATTATATTTAA
741357 AATTATATTTAA
1 AATTATATTTAA
*
741369 CATTATATTT
1 AATTATATTT
741379 TAAACATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (12 bp):
AATTATATTTAA
Found at i:741386 original size:14 final size:13
Alignment explanation
Indices: 741350--741387 Score: 53
Period size: 12 Copynumber: 3.0 Consensus size: 13
741340 TCAATAATTT
741350 TATTTAAA-ATTA
1 TATTTAAACATTA
741362 TATTT-AACATTA
1 TATTTAAACATTA
741374 TATTTTAAACATTA
1 TA-TTTAAACATTA
741388 AAATATTAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 2 0.09
12 11 0.48
13 3 0.13
14 7 0.30
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (13 bp):
TATTTAAACATTA
Found at i:744531 original size:138 final size:138
Alignment explanation
Indices: 744378--744671 Score: 464
Period size: 138 Copynumber: 2.1 Consensus size: 138
744368 TTAGATGAAT
*
744378 ATTCAATGATTGATTAAAATTGTCTAGGTTAATAATTAGAGCCTCCACTTTAGGCTTAATTTCAT
1 ATTCAATAATTGATTAAAATTGTCTAGGTTAATAATTAGAGCCTCCACTTTAGGCTTAATTTCAT
* * *
744443 ACTTAGTTCTTTAATTTAGGGGAATTTTTAATTTGATCATCACTTTTGCTCGAGGTTCCATTTTA
66 ACTTAGTCCTTTAATTTAGGGGAATTTTTAATTTGATCCTCGCTTTTGCTCGAGGTTCCATTTTA
744508 ATTATTCG
131 ATTATTCG
* *
744516 ATTCAATAATTGATTAAAATT-TACCAGGTTAATAATTAGAGCCTCCACTTTAGACTTAATTTCA
1 ATTCAATAATTGATTAAAATTGT-CTAGGTTAATAATTAGAGCCTCCACTTTAGGCTTAATTTCA
* * * *
744580 CACCTAGTCCTTTAATTTAGGGGAATTTTTAATTTGGTCCTCACTTTTGCTCGAGGTTCCATTTT
65 TACTTAGTCCTTTAATTTAGGGGAATTTTTAATTTGATCCTCGCTTTTGCTCGAGGTTCCATTTT
*
744645 AATTATTTG
130 AATTATTCG
744654 ATTCAATAAATTGATTAA
1 ATTCAAT-AATTGATTAA
744672 TTTGATTCAA
Statistics
Matches: 145, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
137 1 0.01
138 134 0.92
139 10 0.07
ACGTcount: A:0.29, C:0.15, G:0.13, T:0.43
Consensus pattern (138 bp):
ATTCAATAATTGATTAAAATTGTCTAGGTTAATAATTAGAGCCTCCACTTTAGGCTTAATTTCAT
ACTTAGTCCTTTAATTTAGGGGAATTTTTAATTTGATCCTCGCTTTTGCTCGAGGTTCCATTTTA
ATTATTCG
Found at i:744669 original size:13 final size:13
Alignment explanation
Indices: 744651--744691 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
744641 TTTTAATTAT
744651 TTGATTCAATAAA
1 TTGATTCAATAAA
744664 TTGATT-AAT---
1 TTGATTCAATAAA
744673 TTGATTCAATAAA
1 TTGATTCAATAAA
744686 TTGATT
1 TTGATT
744692 AAAATTAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
9 6 0.25
10 3 0.12
12 3 0.12
13 12 0.50
ACGTcount: A:0.39, C:0.05, G:0.10, T:0.46
Consensus pattern (13 bp):
TTGATTCAATAAA
Found at i:744677 original size:22 final size:22
Alignment explanation
Indices: 744649--744693 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
744639 CATTTTAATT
744649 ATTTGATTCAATAAATTGATTA
1 ATTTGATTCAATAAATTGATTA
744671 ATTTGATTCAATAAATTGATTA
1 ATTTGATTCAATAAATTGATTA
744693 A
1 A
744694 AATTAACTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.42, C:0.04, G:0.09, T:0.44
Consensus pattern (22 bp):
ATTTGATTCAATAAATTGATTA
Found at i:744696 original size:161 final size:160
Alignment explanation
Indices: 744515--744823 Score: 483
Period size: 161 Copynumber: 1.9 Consensus size: 160
744505 TTAATTATTC
* *
744515 GATTCAATAATTGATTAAAATTTACCAGGTTAATAATTAGAGCCTCCACTTTAGACTTAATTTCA
1 GATTCAATAATTGATTAAAATTAACCAGCTTAATAATTAGAGCCTCCACTTTAGACTTAATTTCA
* *
744580 CACCTAGTCCTTTAATTTAGGGGAATTTTTAATTTGGTCCTCACTTTTGCTCGAGGTTCCATTTT
66 CACCTAGTCCTTTAATTTAGGGGAATTTTTAACTTAGTCCTCACTTTTGCTCGAGGTTCCATTTT
**
744645 AATTATTTGATTCAATAAATTGATTAATTT
131 AATTATTCAATTCAATAAATTGATTAATTT
* *
744675 GATTCAATAAATTGATTAAAATTAACTAGCTTAATAATTAGAGCCTCCACTTTAGGCTTAATTTC
1 GATTCAAT-AATTGATTAAAATTAACCAGCTTAATAATTAGAGCCTCCACTTTAGACTTAATTTC
* * * * * *
744740 ATACTTAGTCCTTTAATTTAGGGGAATTTTTAACTTAGTCCTCGCTTTTGTTCGATGTTTCATTT
65 ACACCTAGTCCTTTAATTTAGGGGAATTTTTAACTTAGTCCTCACTTTTGCTCGAGGTTCCATTT
744805 TAATTATTCAATTCAATAA
130 TAATTATTCAATTCAATAA
744824 CTAATTAAAA
Statistics
Matches: 134, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
160 8 0.06
161 126 0.94
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.43
Consensus pattern (160 bp):
GATTCAATAATTGATTAAAATTAACCAGCTTAATAATTAGAGCCTCCACTTTAGACTTAATTTCA
CACCTAGTCCTTTAATTTAGGGGAATTTTTAACTTAGTCCTCACTTTTGCTCGAGGTTCCATTTT
AATTATTCAATTCAATAAATTGATTAATTT
Found at i:744928 original size:299 final size:298
Alignment explanation
Indices: 744378--744970 Score: 927
Period size: 299 Copynumber: 2.0 Consensus size: 298
744368 TTAGATGAAT
* ** *
744378 ATTCAATGATTGATTAAAATTGTCTAGGTTAATAATTAGAGCCTCCACTTTAGGCTTAATTTCAT
1 ATTCAATAATTGATTAAAATTAACTAGCTTAATAATTAGAGCCTCCACTTTAGGCTTAATTTCAT
* *
744443 ACTTAGTTCTTTAATTTAGGGGAATTTTTAATTTGATCATCACTTTTGCTCGAGGTTCCATTTTA
66 ACTTAGTCCTTTAATTTAGGGGAATTTTTAATTAGATCATCACTTTTGCTCGAGGTTCCATTTTA
* * * * *
744508 ATTATTCGATTCAATAATTGATTAAAATTTACCAGGTTAATAATTAGAGCCTCCACTTTAGACTT
131 ATTATTCAATTCAATAACTAATTAAAATTGACCAGGTTAATAATTAAAGCCTCCACTTTAGACTT
* * *
744573 AATTTCACACCTAGTCCTTTAATTTAGGGGAATTTTTAATTTGGTCCTCACTTTTGCTCGAGGTT
196 AATTTCACACCTAGTCCTTTAATTTAGGGGAATATTTAACTTAGTCCTCACTTTTGCTCGAGGTT
744638 CCATTTTAATTATTTGATTCAATAAATTGATTAATTTG
261 CCATTTTAATTATTTGATTCAATAAATTGATTAATTTG
744676 ATTCAATAAATTGATTAAAATTAACTAGCTTAATAATTAGAGCCTCCACTTTAGGCTTAATTTCA
1 ATTCAAT-AATTGATTAAAATTAACTAGCTTAATAATTAGAGCCTCCACTTTAGGCTTAATTTCA
* * * * *
744741 TACTTAGTCCTTTAATTTAGGGGAATTTTTAACTTAG-TCCTCGCTTTTGTTCGATGTTTCATTT
65 TACTTAGTCCTTTAATTTAGGGGAATTTTTAA-TTAGATCATCACTTTTGCTCGAGGTTCCATTT
* * *
744805 TAATTATTCAATTCAATAACTAATTAAAATTGACTATGTTAATAATTAAAGCCTCCACTTTAGGC
129 TAATTATTCAATTCAATAACTAATTAAAATTGACCAGGTTAATAATTAAAGCCTCCACTTTAGAC
* * *
744870 TTAATTTCACACTTAGTCCTTTAATTTAGGGGAATATTTAGCTTAGTCCTCGCTTTTGCTCGAGG
194 TTAATTTCACACCTAGTCCTTTAATTTAGGGGAATATTTAACTTAGTCCTCACTTTTGCTCGAGG
*
744935 TTCCATTTTAATTATTTGATTCAATAAATTGGTTAA
259 TTCCATTTTAATTATTTGATTCAATAAATTGATTAA
744971 AATTAACTAG
Statistics
Matches: 267, Mismatches: 26, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
298 7 0.03
299 257 0.96
300 3 0.01
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.43
Consensus pattern (298 bp):
ATTCAATAATTGATTAAAATTAACTAGCTTAATAATTAGAGCCTCCACTTTAGGCTTAATTTCAT
ACTTAGTCCTTTAATTTAGGGGAATTTTTAATTAGATCATCACTTTTGCTCGAGGTTCCATTTTA
ATTATTCAATTCAATAACTAATTAAAATTGACCAGGTTAATAATTAAAGCCTCCACTTTAGACTT
AATTTCACACCTAGTCCTTTAATTTAGGGGAATATTTAACTTAGTCCTCACTTTTGCTCGAGGTT
CCATTTTAATTATTTGATTCAATAAATTGATTAATTTG
Found at i:745042 original size:139 final size:138
Alignment explanation
Indices: 744671--745252 Score: 675
Period size: 138 Copynumber: 4.2 Consensus size: 138
744661 AAATTGATTA
*
744671 ATTTGATTCAATAAATTGATTAAAATTAACTAGCTTAATAATTAGAGCCTCCACTTTAGGCTTAA
1 ATTTGATTCAAT-AATTGATTAAAATTAACTAGGTTAATAATTAGAGCCTCCACTTTAGGCTTAA
* *
744736 TTTCATACTTAGTCCTTTAATTTAGGGGAATTTTTAACTTAGTCCTCGCTTTTGTTCGATGTTTC
65 TTTCATACTTAGTCCTTTAATTTAGGGGAATTTTTAACTTAGTCCTCGCTTTTGCTCGAGGTTTC
744801 ATTTTAATT
130 ATTTTAATT
** * * * * *
744810 ATTCAATTCAATAACTAATTAAAATTGACTATGTTAATAATTAAAGCCTCCACTTTAGGCTTAAT
1 ATTTGATTCAATAATTGATTAAAATTAACTAGGTTAATAATTAGAGCCTCCACTTTAGGCTTAAT
* * * *
744875 TTCACACTTAGTCCTTTAATTTAGGGGAATATTTAGCTTAGTCCTCGCTTTTGCTCGAGGTTCCA
66 TTCATACTTAGTCCTTTAATTTAGGGGAATTTTTAACTTAGTCCTCGCTTTTGCTCGAGGTTTCA
744940 TTTTAATT
131 TTTTAATT
* *
744948 ATTTGATTCAATAAATTGGTTAAAATTAACTAGGTTAATAATTAGAGCCTCCACTTTAGGTTTAA
1 ATTTGATTCAAT-AATTGATTAAAATTAACTAGGTTAATAATTAGAGCCTCCACTTTAGGCTTAA
* * * * * * * *
745013 TTTCTTACTTAATCTTTTAATTTATGGGAATTTTTAATTTGGTTCTCGCTTATGCTCGAGGTTTC
65 TTTCATACTTAGTCCTTTAATTTAGGGGAATTTTTAACTTAGTCCTCGCTTTTGCTCGAGGTTTC
745078 ATTTTAATT
130 ATTTTAATT
* * * * * * * *
745087 ATTCT-ATTCAATAATTGGTTAAAATGAATTA-GTTCAATATTTAGAGCCTCTACCTCATGCTTA
1 ATT-TGATTCAATAATTGATTAAAATTAACTAGGTT-AATAATTAGAGCCTCCACTTTAGGCTTA
* * * * * *
745150 ATTTCATA-TCTAGTCCTCTAATTTAGGAGTATTTTTTTATTTTGTCCTCGCTTTTATGCTCGAG
64 ATTTCATACT-TAGTCCTTTAATTTAGG-GGAATTTTTAACTTAGTCCTCGC-TTT-TGCTCGAG
* **
745214 ATTTCATTTTGGTT
125 GTTTCATTTTAATT
* * *
745228 ATTCGACTCAATAATTTATTAAAAT
1 ATTTGATTCAATAATTGATTAAAAT
745253 GATTTGGATA
Statistics
Matches: 374, Mismatches: 61, Indels: 14
0.83 0.14 0.03
Matches are distributed among these distances:
137 4 0.01
138 183 0.49
139 145 0.39
140 3 0.01
141 39 0.10
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.45
Consensus pattern (138 bp):
ATTTGATTCAATAATTGATTAAAATTAACTAGGTTAATAATTAGAGCCTCCACTTTAGGCTTAAT
TTCATACTTAGTCCTTTAATTTAGGGGAATTTTTAACTTAGTCCTCGCTTTTGCTCGAGGTTTCA
TTTTAATT
Found at i:745166 original size:277 final size:277
Alignment explanation
Indices: 744671--745176 Score: 730
Period size: 277 Copynumber: 1.8 Consensus size: 277
744661 AAATTGATTA
744671 ATTTGATTCAATAAATTGATTAAAATTAACTAGCTTAATAATTAGAGCCTCCACTTTAGGCTTAA
1 ATTTGATTCAATAAATTGATTAAAATTAACTAGCTTAATAATTAGAGCCTCCACTTTAGGCTTAA
* * * *
744736 TTTCATACTTAGTCCTTTAATTTAGGGGAATTTTTAACTTAGTCCTCGCTTTTGTTCGATGTTTC
66 TTTCATACTTAATCCTTTAATTTAGGGGAATTTTTAACTTAGTCCTCGCTTATGCTCGAGGTTTC
* *
744801 ATTTTAATTATTCAATTCAATAACTAATTAAAATTGACTATGTTAATAATTAAAGCCTCCACTTT
131 ATTTTAATTATTCAATTCAATAACTAATTAAAATTGACTATGTTAATAATTAAAGCCTCCACCTC
*
744866 AGGCTTAATTTCACACTTAGTCCTTTAATTTAGGGGAATATTTAGCTTAGTCCTCGCTTTTGCTC
196 AGGCTTAATTTCACACTTAGTCCTCTAATTTAGGGGAATATTTAGCTTAGTCCTCGCTTTTGCTC
744931 GAGGTTCCATTTTAATT
261 GAGGTTCCATTTTAATT
* * *
744948 ATTTGATTCAATAAATTGGTTAAAATTAACTAGGTTAATAATTAGAGCCTCCACTTTAGGTTTAA
1 ATTTGATTCAATAAATTGATTAAAATTAACTAGCTTAATAATTAGAGCCTCCACTTTAGGCTTAA
* * * * * *
745013 TTTCTTACTTAATCTTTTAATTTATGGGAATTTTTAATTTGGTTCTCGCTTATGCTCGAGGTTTC
66 TTTCATACTTAATCCTTTAATTTAGGGGAATTTTTAACTTAGTCCTCGCTTATGCTCGAGGTTTC
* * ** * * * *
745078 ATTTTAATTATTCTATTCAATAATTGGTTAAAA-TGAAT-TAGTTCAATATTTAGAGCCTCTACC
131 ATTTTAATTATTCAATTCAATAACTAATTAAAATTGACTAT-GTT-AATAATTAAAGCCTCCACC
* *
745141 TCATGCTTAATTTCATA-TCTAGTCCTCTAATTTAGG
194 TCAGGCTTAATTTCACACT-TAGTCCTCTAATTTAGG
745177 AGTATTTTTT
Statistics
Matches: 200, Mismatches: 26, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
275 1 0.00
276 8 0.04
277 191 0.95
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.43
Consensus pattern (277 bp):
ATTTGATTCAATAAATTGATTAAAATTAACTAGCTTAATAATTAGAGCCTCCACTTTAGGCTTAA
TTTCATACTTAATCCTTTAATTTAGGGGAATTTTTAACTTAGTCCTCGCTTATGCTCGAGGTTTC
ATTTTAATTATTCAATTCAATAACTAATTAAAATTGACTATGTTAATAATTAAAGCCTCCACCTC
AGGCTTAATTTCACACTTAGTCCTCTAATTTAGGGGAATATTTAGCTTAGTCCTCGCTTTTGCTC
GAGGTTCCATTTTAATT
Found at i:745271 original size:277 final size:277
Alignment explanation
Indices: 744678--745290 Score: 709
Period size: 277 Copynumber: 2.2 Consensus size: 277
744668 TTAATTTGAT
** *
744678 TCAATAAATTGATTAAAATTAACTAGCTTAATAATTAGAGCCTCCACTTTAGGCTTAATTTCATA
1 TCAATAAATTGATTAAAATTAACTAGGATAATAATTAGAGCCTCCACTTTAGGTTTAATTTCATA
* * * *
744743 CTTAGTCCTTTAATTTAGGGGAATTTTTAACTTAGTCCTCGCTTTTGTTCGATGTTTCATTTTAA
66 CTTAATCCTTTAATTTAGGGGAATTTTTAACTTAGTCCTCGCTTATGCTCGAGGTTTCATTTTAA
* *
744808 TTATTCAATTCAATAACTAATTAAAATTGACTATGTTAATAATTAAAGCCTCCACTTTAGGCTTA
131 TTATTCAATTCAATAACTAATTAAAATTGACTATGTTAATAATTAAAGCCTCCACCTCAGGCTTA
* *
744873 ATTTCACACTTAGTCCTTTAATTTAGGGGAATATTTAGCTTAGTCCTCGCTTTTGCTCGAGGTTC
196 ATTTCACACTTAGTCCTCTAATTTAGGGGAATATTTAGCTTAGTCCTCGCTTTTGCTCGAGATTC
* *
744938 CATTTTAATTATTTGAT
261 CATTTTAATTATTCGAC
* * *
744955 TCAATAAATTGGTTAAAATTAACTAGGTTAATAATTAGAGCCTCCACTTTAGGTTTAATTTCTTA
1 TCAATAAATTGATTAAAATTAACTAGGATAATAATTAGAGCCTCCACTTTAGGTTTAATTTCATA
* * * * *
745020 CTTAATCTTTTAATTTATGGGAATTTTTAATTTGGTTCTCGCTTATGCTCGAGGTTTCATTTTAA
66 CTTAATCCTTTAATTTAGGGGAATTTTTAACTTAGTCCTCGCTTATGCTCGAGGTTTCATTTTAA
* * ** * * * * *
745085 TTATTCTATTCAATAATTGGTTAAAA-TGAAT-TAGTTCAATATTTAGAGCCTCTACCTCATGCT
131 TTATTCAATTCAATAACTAATTAAAATTGACTAT-GTT-AATAATTAAAGCCTCCACCTCAGGCT
* * * * * *
745148 TAATTTCATA-TCTAGTCCTCTAATTTAGGAGTATTTTTTTA-TTTTGTCCTCGCTTTTATGCTC
194 TAATTTCACACT-TAGTCCTCTAATTTAGG-GGA-ATATTTAGCTTAGTCCTCGC-TTT-TGCTC
* **
745211 GAGATTTCATTTTGGTTATTCGAC
254 GAGATTCCATTTTAATTATTCGAC
* * * * * *
745235 TCAAT-AATTTATTAAAA-TGATTTGGATAAT-ATTAGAGCCTACATTTTAGGTTTAAT
1 TCAATAAATTGATTAAAATTAACTAGGATAATAATTAGAGCCTCCACTTTAGGTTTAAT
745291 CTTTTAGGTT
Statistics
Matches: 284, Mismatches: 45, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
275 1 0.00
276 8 0.03
277 208 0.73
278 21 0.07
279 18 0.06
280 28 0.10
ACGTcount: A:0.29, C:0.14, G:0.13, T:0.44
Consensus pattern (277 bp):
TCAATAAATTGATTAAAATTAACTAGGATAATAATTAGAGCCTCCACTTTAGGTTTAATTTCATA
CTTAATCCTTTAATTTAGGGGAATTTTTAACTTAGTCCTCGCTTATGCTCGAGGTTTCATTTTAA
TTATTCAATTCAATAACTAATTAAAATTGACTATGTTAATAATTAAAGCCTCCACCTCAGGCTTA
ATTTCACACTTAGTCCTCTAATTTAGGGGAATATTTAGCTTAGTCCTCGCTTTTGCTCGAGATTC
CATTTTAATTATTCGAC
Found at i:750364 original size:19 final size:19
Alignment explanation
Indices: 750340--750390 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
750330 AAATGACCAA
*
750340 CAAATTTGCAACGCGATCT
1 CAAATTTGCAACGCGAACT
*
750359 CAAATTCGCAACGCGAACT
1 CAAATTTGCAACGCGAACT
*
750378 CCAATTTCGCAAC
1 CAAATTT-GCAAC
750391 ATAGGTTCCA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 22 0.81
20 5 0.19
ACGTcount: A:0.33, C:0.31, G:0.14, T:0.22
Consensus pattern (19 bp):
CAAATTTGCAACGCGAACT
Found at i:750445 original size:40 final size:40
Alignment explanation
Indices: 750420--750511 Score: 148
Period size: 40 Copynumber: 2.3 Consensus size: 40
750410 CGTGAATAGT
* *
750420 TAAATCGCAACGCGAATAGTTAAATCACAACGATAATATG
1 TAAATCGCAACGCGAATAGGTAAATCGCAACGATAATATG
*
750460 TAAATCGCAACGCGAATAGGTAAATCGCAACAATAATATG
1 TAAATCGCAACGCGAATAGGTAAATCGCAACGATAATATG
*
750500 TAAATTGCAACG
1 TAAATCGCAACG
750512 TGATTTTCCA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.45, C:0.17, G:0.16, T:0.22
Consensus pattern (40 bp):
TAAATCGCAACGCGAATAGGTAAATCGCAACGATAATATG
Found at i:750497 original size:20 final size:20
Alignment explanation
Indices: 750401--750590 Score: 121
Period size: 20 Copynumber: 9.5 Consensus size: 20
750391 ATAGGTTCCA
* * *
750401 AAATCGCACCGTGAATAGTT
1 AAATCGCAACGAGAATAGGT
* *
750421 AAATCGCAACGCGAATAGTT
1 AAATCGCAACGAGAATAGGT
* * *
750441 AAATCACAACGATAATATGT
1 AAATCGCAACGAGAATAGGT
*
750461 AAATCGCAACGCGAATAGGT
1 AAATCGCAACGAGAATAGGT
* * *
750481 AAATCGCAACAATAATATGT
1 AAATCGCAACGAGAATAGGT
* * * ****
750501 AAATTGCAACGTGATTTTCC
1 AAATCGCAACGAGAATAGGT
*
750521 AAATTCGCAACGCGAATAGGT
1 AAA-TCGCAACGAGAATAGGT
* * * *
750542 -AATCACAATGATAATATGT
1 AAATCGCAACGAGAATAGGT
* **
750561 AAATCGCAACGCGAATTTGT
1 AAATCGCAACGAGAATAGGT
750581 AAATCGCAAC
1 AAATCGCAAC
750591 ACAGAAGTCA
Statistics
Matches: 128, Mismatches: 40, Indels: 4
0.74 0.23 0.02
Matches are distributed among these distances:
19 12 0.09
20 106 0.83
21 10 0.08
ACGTcount: A:0.41, C:0.18, G:0.17, T:0.24
Consensus pattern (20 bp):
AAATCGCAACGAGAATAGGT
Found at i:750504 original size:60 final size:58
Alignment explanation
Indices: 750401--750590 Score: 177
Period size: 60 Copynumber: 3.2 Consensus size: 58
750391 ATAGGTTCCA
* * * ** *
750401 AAATCGCACCGTGAATAGTTAAATCGCAACGCGAATA-GTTAAATCACAACGATAATATGT
1 AAATCGCAACGCGAATAGGTAAATCGCAACGATAATATG-TAAATCGCAACG-TAAT-TGT
* * * *
750461 AAATCGCAACGCGAATAGGTAAATCGCAACAATAATATGTAAATTGCAACGTGATTTT
1 AAATCGCAACGCGAATAGGTAAATCGCAACGATAATATGTAAATCGCAACGTAATTGT
* * *
750519 CCAAATTCGCAACGCGAATAGGT-AATCACAATGATAATATGTAAATCGCAACGCGAATTTGT
1 --AAA-TCGCAACGCGAATAGGTAAATCGCAACGATAATATGTAAATCGCAACG-TAA-TTGT
750581 AAATCGCAAC
1 AAATCGCAAC
750591 ACAGAAGTCA
Statistics
Matches: 107, Mismatches: 17, Indels: 13
0.78 0.12 0.09
Matches are distributed among these distances:
58 2 0.02
59 10 0.09
60 73 0.68
61 19 0.18
62 3 0.03
ACGTcount: A:0.41, C:0.18, G:0.17, T:0.24
Consensus pattern (58 bp):
AAATCGCAACGCGAATAGGTAAATCGCAACGATAATATGTAAATCGCAACGTAATTGT
Found at i:751138 original size:20 final size:20
Alignment explanation
Indices: 751113--751159 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
751103 AAACTTAAAT
751113 TTGCAACACAAAAATGAAAA
1 TTGCAACACAAAAATGAAAA
* *
751133 TTGCAACGCGAAAATGAAAA
1 TTGCAACACAAAAATGAAAA
*
751153 TCGCAAC
1 TTGCAAC
751160 GTTGCGAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.51, C:0.19, G:0.15, T:0.15
Consensus pattern (20 bp):
TTGCAACACAAAAATGAAAA
Found at i:751160 original size:20 final size:21
Alignment explanation
Indices: 751123--751174 Score: 70
Period size: 20 Copynumber: 2.4 Consensus size: 21
751113 TTGCAACACA
*
751123 AAAATGAAAATTGCAAC-GCG
1 AAAATGAAAATCGCAACTGCG
751143 AAAATGAAAATCGCAACGTTGCG
1 AAAATGAAAATCGCAAC--TGCG
751166 AAAATGAAA
1 AAAATGAAA
751175 TTTGCGTTGC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 16 0.57
23 12 0.43
ACGTcount: A:0.52, C:0.13, G:0.19, T:0.15
Consensus pattern (21 bp):
AAAATGAAAATCGCAACTGCG
Found at i:752780 original size:42 final size:42
Alignment explanation
Indices: 752690--752786 Score: 115
Period size: 42 Copynumber: 2.3 Consensus size: 42
752680 CCCCCAACTT
* * * *
752690 CGAGAGCCATCACCTGATCAACCCGATTCTACATCTCGACAC
1 CGAGAGCCATCACATGATCAACCCGATTATACATCTCCACAA
* * *
752732 CCAGAGCCATCACATGATCAAGCCGATTATACA-CATCCATAA
1 CGAGAGCCATCACATGATCAACCCGATTATACATC-TCCACAA
752774 CGAGAGCCATCAC
1 CGAGAGCCATCAC
752787 CTATTCCATC
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
41 1 0.02
42 45 0.98
ACGTcount: A:0.33, C:0.35, G:0.14, T:0.18
Consensus pattern (42 bp):
CGAGAGCCATCACATGATCAACCCGATTATACATCTCCACAA
Found at i:752993 original size:21 final size:21
Alignment explanation
Indices: 752969--753018 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
752959 TGGTGCATGG
*
752969 CGTGATGAGGTA-CGGTCTTTA
1 CGTGATGAGGTAGAGGT-TTTA
*
752990 CGTGGTGAGGTAGAGGTTTTA
1 CGTGATGAGGTAGAGGTTTTA
*
753011 CGCGATGA
1 CGTGATGA
753019 CAATGGAGCT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 21 0.88
22 3 0.12
ACGTcount: A:0.20, C:0.12, G:0.38, T:0.30
Consensus pattern (21 bp):
CGTGATGAGGTAGAGGTTTTA
Found at i:753051 original size:21 final size:21
Alignment explanation
Indices: 753027--753085 Score: 100
Period size: 21 Copynumber: 2.8 Consensus size: 21
753017 GACAATGGAG
753027 CTTTACGTGGTGAGGTATCTA
1 CTTTACGTGGTGAGGTATCTA
*
753048 CTTTACGTGGTAAGGTATCTA
1 CTTTACGTGGTGAGGTATCTA
*
753069 CTTTACGTGATGAGGTA
1 CTTTACGTGGTGAGGTA
753086 GCTGCTCTAC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.22, C:0.14, G:0.27, T:0.37
Consensus pattern (21 bp):
CTTTACGTGGTGAGGTATCTA
Found at i:753096 original size:21 final size:21
Alignment explanation
Indices: 753027--753099 Score: 92
Period size: 21 Copynumber: 3.5 Consensus size: 21
753017 GACAATGGAG
*
753027 CTTTACGTGGTGAGGTATCTA
1 CTTTACGTGATGAGGTATCTA
* *
753048 CTTTACGTGGTAAGGTATCTA
1 CTTTACGTGATGAGGTATCTA
* *
753069 CTTTACGTGATGAGGTAGCTG
1 CTTTACGTGATGAGGTATCTA
*
753090 CTCTACGTGA
1 CTTTACGTGA
753100 GATTGTTGTG
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.21, C:0.16, G:0.27, T:0.36
Consensus pattern (21 bp):
CTTTACGTGATGAGGTATCTA
Found at i:753222 original size:12 final size:12
Alignment explanation
Indices: 753196--753237 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
753186 TTTTTCAGCA
753196 TTATTTATTTG-T
1 TTATTTA-TTGAT
753208 TTATTTATTGAT
1 TTATTTATTGAT
* *
753220 TTATGTATTAAT
1 TTATTTATTGAT
753232 TTATTT
1 TTATTT
753238 TTAGCGGCCC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
11 3 0.12
12 23 0.88
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (12 bp):
TTATTTATTGAT
Found at i:753432 original size:21 final size:21
Alignment explanation
Indices: 753381--753475 Score: 102
Period size: 21 Copynumber: 4.5 Consensus size: 21
753371 GATTCACCTG
*
753381 TCATCGTTCAAGAGGCCTCT-
1 TCATCGTTCAAGAGGCCCCTA
* *
753401 CCTATTGTTCAAGAGGCCCCTA
1 TC-ATCGTTCAAGAGGCCCCTA
* *
753423 TCATCATTCAAGAGGCCCCTC
1 TCATCGTTCAAGAGGCCCCTA
* * *
753444 CCACCGTTCAAGAGGACCCTA
1 TCATCGTTCAAGAGGCCCCTA
753465 TCATCGTTCAA
1 TCATCGTTCAA
753476 AAGATCCCTC
Statistics
Matches: 59, Mismatches: 14, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 1 0.02
21 57 0.97
22 1 0.02
ACGTcount: A:0.24, C:0.34, G:0.17, T:0.25
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTA
Done.