Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032253.1 Gossypioides kirkii chromosome KI_11
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: 55708359
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 147 of 182
Found at i:45319274 original size:59 final size:59
Alignment explanation
Indices: 45319187--45319527 Score: 431
Period size: 59 Copynumber: 5.8 Consensus size: 59
45319177 GGGCAAAAAT
*
45319187 GTAA-TTTTGA-GAAAATTTGGGGTCAAAAATGGAGTTTTGGAAAGTTTGGGGGTAAAACA
1 GTAATTTTTGATG-AAA-TTGGGGTTAAAAATGGAGTTTTGGAAAGTTTGGGGGTAAAACA
* * *
45319246 GTAATTTTTGGTGAAATTAGGGTTAAAAATGGAGTTTTGGAAAGTTT-GGGGTAAAATA
1 GTAATTTTTGATGAAATTGGGGTTAAAAATGGAGTTTTGGAAAGTTTGGGGGTAAAACA
* * * * * *
45319304 GTAATTTTTGATGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCGGGGATAAAACG
1 GTAATTTTTGATGAAATTGGGGTTAAAAATGGAGTTTTGGAAAGTTTGGGGGTAAAACA
* * *
45319363 GTAATTTTTGATGAAATTGGGGTTAAAAAT-GAGATTTTGGAAAGTTCGAGGGTAAAACT
1 GTAATTTTTGATGAAATTGGGGTTAAAAATGGAG-TTTTGGAAAGTTTGGGGGTAAAACA
* * **
45319422 GTAATTTTTGATGAAATCGGGGTTAAAAATGG-GATTTTGGAAAGTTTAGGGGTAAAATG
1 GTAATTTTTGATGAAATTGGGGTTAAAAATGGAG-TTTTGGAAAGTTTGGGGGTAAAACA
* *
45319481 GTAATTTTTGGTGAAAATTGGGGTTAAAAATGGAATTTTGGAAAGTT
1 GTAATTTTTGATG-AAATTGGGGTTAAAAATGGAGTTTTGGAAAGTT
45319528 CAGGGATAAA
Statistics
Matches: 247, Mismatches: 28, Indels: 13
0.86 0.10 0.05
Matches are distributed among these distances:
58 53 0.21
59 154 0.62
60 39 0.16
61 1 0.00
ACGTcount: A:0.35, C:0.02, G:0.29, T:0.34
Consensus pattern (59 bp):
GTAATTTTTGATGAAATTGGGGTTAAAAATGGAGTTTTGGAAAGTTTGGGGGTAAAACA
Found at i:45319573 original size:29 final size:27
Alignment explanation
Indices: 45319535--45319604 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 27
45319525 GTTCAGGGAT
45319535 AAAATGGTAATTTTCAAAAGTTTCGGGGTC
1 AAAAT-GTAATTTTCAAAA-TTT-GGGGTC
** *
45319565 AAAATGTAATTTTTTGAAATTTTGGGTC
1 AAAATGTAA-TTTTCAAAATTTGGGGTC
45319593 AAAATGTAATTT
1 AAAATGTAATTT
45319605 CTGGATTATT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
27 3 0.08
28 14 0.39
29 7 0.19
30 12 0.33
ACGTcount: A:0.36, C:0.06, G:0.19, T:0.40
Consensus pattern (27 bp):
AAAATGTAATTTTCAAAATTTGGGGTC
Found at i:45321564 original size:6 final size:6
Alignment explanation
Indices: 45321555--45321636 Score: 95
Period size: 6 Copynumber: 14.7 Consensus size: 6
45321545 ACAAATAATA
* *
45321555 TTAAAT TTAAA- TTAAAT TCAAAC TTAAA- TTAAAT TTAAA- -TAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
*
45321599 TTAAAT TTAAA- TTAAAT TTAAAT TTAAA- ATAAAT TTAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAA
45321637 TTTCAAAGTA
Statistics
Matches: 65, Mismatches: 5, Indels: 12
0.79 0.06 0.15
Matches are distributed among these distances:
4 4 0.06
5 19 0.29
6 42 0.65
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (6 bp):
TTAAAT
Found at i:45321570 original size:11 final size:11
Alignment explanation
Indices: 45321555--45321636 Score: 89
Period size: 11 Copynumber: 7.4 Consensus size: 11
45321545 ACAAATAATA
45321555 TTAAATTTAAA-
1 TTAAA-TTAAAT
*
45321566 TTAAATTCAAAC
1 TTAAATT-AAAT
45321578 TTAAATTAAAT
1 TTAAATTAAAT
45321589 TTAAA-TAAAT
1 TTAAATTAAAT
45321599 TTAAATTTAAA-
1 TTAAA-TTAAAT
45321610 TTAAATTTAAAT
1 TTAAA-TTAAAT
*
45321622 TTAAAATAAAT
1 TTAAATTAAAT
45321633 TTAA
1 TTAA
45321637 TTTCAAAGTA
Statistics
Matches: 64, Mismatches: 2, Indels: 10
0.84 0.03 0.13
Matches are distributed among these distances:
10 12 0.19
11 36 0.56
12 16 0.25
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (11 bp):
TTAAATTAAAT
Found at i:45321583 original size:17 final size:17
Alignment explanation
Indices: 45321555--45321655 Score: 111
Period size: 17 Copynumber: 5.9 Consensus size: 17
45321545 ACAAATAATA
45321555 TTAAATTTAAA-TTAAAT
1 TTAAA-TTAAATTTAAAT
*
45321572 TCAAACTTAAA-TTAAAT
1 TTAAA-TTAAATTTAAAT
45321589 TTAAA-TAAATTTAAAT
1 TTAAATTAAATTTAAAT
45321605 TTAAATTAAATTTAAAT
1 TTAAATTAAATTTAAAT
*
45321622 TTAAAATAAATTT-AAT
1 TTAAATTAAATTTAAAT
*
45321638 TTCAAAGTAAATTCTAAA
1 TT-AAATTAAATT-TAAA
45321656 ACGGTTTGAG
Statistics
Matches: 74, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
15 4 0.05
16 16 0.22
17 51 0.69
18 1 0.01
19 2 0.03
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (17 bp):
TTAAATTAAATTTAAAT
Found at i:45321597 original size:27 final size:27
Alignment explanation
Indices: 45321554--45321621 Score: 109
Period size: 27 Copynumber: 2.5 Consensus size: 27
45321544 TACAAATAAT
45321554 ATTAAATTTAAATTAAATTCAAACTTAA
1 ATTAAATTTAAA-TAAATTCAAACTTAA
* *
45321582 ATTAAATTTAAATAAATTTAAATTTAA
1 ATTAAATTTAAATAAATTCAAACTTAA
45321609 ATTAAATTTAAAT
1 ATTAAATTTAAAT
45321622 TTAAAATAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 26 0.68
28 12 0.32
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (27 bp):
ATTAAATTTAAATAAATTCAAACTTAA
Found at i:45329842 original size:13 final size:13
Alignment explanation
Indices: 45329824--45329849 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
45329814 ATCAGATTAG
45329824 ATAAGATTTTTTA
1 ATAAGATTTTTTA
45329837 ATAAGATTTTTTA
1 ATAAGATTTTTTA
45329850 TTGTATTGTT
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:0.00, G:0.08, T:0.54
Consensus pattern (13 bp):
ATAAGATTTTTTA
Found at i:45331661 original size:3 final size:3
Alignment explanation
Indices: 45331653--45331696 Score: 72
Period size: 3 Copynumber: 15.0 Consensus size: 3
45331643 TTCACTACTG
*
45331653 ATA ATA ATA ATA ATA ATA ATC ATA ATA ATA ATA AT- ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
45331697 TACAACCACT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:45348169 original size:18 final size:20
Alignment explanation
Indices: 45348135--45348171 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
45348125 AGATGGATGC
45348135 TTTTAAAATTATTTTAATAA
1 TTTTAAAATTATTTTAATAA
45348155 TTTT-AAATT-TTTTAATA
1 TTTTAAAATTATTTTAATA
45348172 TAATATATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
19 5 0.29
20 4 0.24
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTTAAAATTATTTTAATAA
Found at i:45348873 original size:16 final size:17
Alignment explanation
Indices: 45348831--45348904 Score: 53
Period size: 19 Copynumber: 4.2 Consensus size: 17
45348821 TTTATCGATT
*
45348831 AAATTATTAAATTATTAA
1 AAATTAATAAATTA-TAA
*
45348849 ACATATAATAAATTA-AA
1 AAAT-TAATAAATTATAA
45348866 AAATTAATTATTAATT-TAA
1 AAATTAA-TA--AATTATAA
* *
45348885 AATTTTATAAATTATAA
1 AAATTAATAAATTATAA
45348902 AAA
1 AAA
45348905 AAATTTATTC
Statistics
Matches: 44, Mismatches: 6, Indels: 13
0.70 0.10 0.21
Matches are distributed among these distances:
16 7 0.16
17 12 0.27
18 5 0.11
19 20 0.45
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (17 bp):
AAATTAATAAATTATAA
Found at i:45349450 original size:16 final size:16
Alignment explanation
Indices: 45349429--45349474 Score: 83
Period size: 16 Copynumber: 2.9 Consensus size: 16
45349419 CTAGGTTGAT
45349429 TAATTAAATTTCTTTC
1 TAATTAAATTTCTTTC
45349445 TAATTAAATTTCTTTC
1 TAATTAAATTTCTTTC
*
45349461 TAATTAAAATTCTT
1 TAATTAAATTTCTT
45349475 ATTATCGCAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.35, C:0.11, G:0.00, T:0.54
Consensus pattern (16 bp):
TAATTAAATTTCTTTC
Found at i:45367654 original size:16 final size:16
Alignment explanation
Indices: 45367635--45367668 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
45367625 ATATTTAAGA
*
45367635 ATTTAATAATTTTTTT
1 ATTTAATAAATTTTTT
*
45367651 ATTTATTAAATTTTTT
1 ATTTAATAAATTTTTT
45367667 AT
1 AT
45367669 ATGATCATCT
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
ATTTAATAAATTTTTT
Found at i:45371455 original size:15 final size:16
Alignment explanation
Indices: 45371437--45371474 Score: 69
Period size: 15 Copynumber: 2.4 Consensus size: 16
45371427 AAGATATTTT
45371437 AACAAATGAAATTAA-
1 AACAAATGAAATTAAC
45371452 AACAAATGAAATTAAC
1 AACAAATGAAATTAAC
45371468 AACAAAT
1 AACAAAT
45371475 ACGATGGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 15 0.68
16 7 0.32
ACGTcount: A:0.66, C:0.11, G:0.05, T:0.18
Consensus pattern (16 bp):
AACAAATGAAATTAAC
Found at i:45372485 original size:3 final size:3
Alignment explanation
Indices: 45372477--45372501 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
45372467 TAACAGCTCA
45372477 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
45372502 TAAAAATAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:45376160 original size:17 final size:18
Alignment explanation
Indices: 45376140--45376177 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
45376130 ACGTTTAGGT
45376140 TTTTTTG-TTTCTGTTGG
1 TTTTTTGCTTTCTGTTGG
*
45376157 TTTTTTGCTTTCTTTTGG
1 TTTTTTGCTTTCTGTTGG
45376175 TTT
1 TTT
45376178 GCTGTGGGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.00, C:0.08, G:0.18, T:0.74
Consensus pattern (18 bp):
TTTTTTGCTTTCTGTTGG
Found at i:45379146 original size:30 final size:28
Alignment explanation
Indices: 45379055--45379148 Score: 102
Period size: 28 Copynumber: 3.2 Consensus size: 28
45379045 AGACTCTCGC
*
45379055 TCGGGGATAAAATGGAATTTTGGAAAGT
1 TCGGGGGTAAAATGGAATTTTGGAAAGT
*
45379083 TCGGGGGTAAAATGGTAATTTTTGATGAA--
1 TCGGGGGTAAAATGG-AATTTTGGA--AAGT
*
45379112 TCGGGGTTTAAAAATGGAATTTTGGAAAGT
1 TCGGGG-GT-AAAATGGAATTTTGGAAAGT
45379142 TCGGGGG
1 TCGGGGG
45379149 GGGGTTAAAG
Statistics
Matches: 54, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
28 16 0.30
29 14 0.26
30 15 0.28
31 9 0.17
ACGTcount: A:0.31, C:0.04, G:0.34, T:0.31
Consensus pattern (28 bp):
TCGGGGGTAAAATGGAATTTTGGAAAGT
Found at i:45379395 original size:76 final size:76
Alignment explanation
Indices: 45379249--45379791 Score: 838
Period size: 76 Copynumber: 7.1 Consensus size: 76
45379239 GTTAAAAATG
*
45379249 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTTATCCAGCTTTACTTCAATTTCAAGAGGA
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTG-TTATCCAGCTTTACTTCAATTTCAAGAGGA
*
45379314 T-GGAAACGATC
65 TAGGAAATGATC
* * *
45379325 TTGCTCTTACTTCAATTTCAGAGATAATGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAGCTTTACTTCAATTTCAAGAGGAT
45379390 AGGAAATGATC
66 AGGAAATGATC
* *
45379401 TTACTCTTACTTCAATTTCAGAGATAAGAGACGTGTTATCCAGCTTTACTTCAATTTCAAGAGGA
1 TTGCTCTTACTTCAATTTCAGAGATAA-AGACTTGTTATCCAGCTTTACTTCAATTTCAAGAGGA
*
45379466 T-GAGAAACGATC
65 TAG-GAAATGATC
* * *
45379478 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAAAAGGG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAGCTTTACTTCAATTTC---AAGAG
*
45379543 GATAGGAAAAGATC
63 GATAGGAAATGATC
* * *
45379557 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAAAGGGA
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAGCTTTACTTCAATTTCAAGA-GGA
45379622 TAGGAAATGATC
65 TAGGAAATGATC
45379634 TTGCCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAGCTTTACTTCAATTTCAAGAGGA
1 TTG-CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAGCTTTACTTCAATTTCAAGAGGA
*
45379699 TAGGAAATGATG
65 TAGGAAATGATC
* *
45379711 TTGCTCTTACTTCAATTTCAGAGATCAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAGCTTTACTTCAATTTCAAGAGGAT
45379776 AGGAAATGATC
66 AGGAAATGATC
45379787 TTGCT
1 TTGCT
45379792 GCAGTCTGAT
Statistics
Matches: 431, Mismatches: 27, Indels: 18
0.91 0.06 0.04
Matches are distributed among these distances:
75 29 0.07
76 172 0.40
77 102 0.24
78 55 0.13
79 72 0.17
80 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (76 bp):
TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAGCTTTACTTCAATTTCAAGAGGAT
AGGAAATGATC
Found at i:45379412 original size:38 final size:38
Alignment explanation
Indices: 45379294--45379788 Score: 251
Period size: 38 Copynumber: 12.9 Consensus size: 38
45379284 TTATCCAGCT
* *
45379294 TTACTTCAATTTCAAGAGGAT-GGAAACGATCTTGCTC
1 TTACTTCAATTTCAAGAGGATAGGAAATGATCTTACTC
* ** **
45379331 TTACTTCAATTTC-AGA-GATAATGACTTGTTATCCAACTC
1 TTACTTCAATTTCAAGAGGAT-AGGAAATG--ATCTTACTC
45379370 -TACTTCAATTTCAAGAGGATAGGAAATGATCTTACTC
1 TTACTTCAATTTCAAGAGGATAGGAAATGATCTTACTC
** *
45379407 TTACTTCAATTTC-AGA-GATAAGAGACGTGTTATC-CAGCT-
1 TTACTTCAATTTCAAGAGGAT-AG-GAAATG--ATCTTA-CTC
* *
45379446 TTACTTCAATTTCAAGAGGAT-GAGAAACGATCTTGCTC
1 TTACTTCAATTTCAAGAGGATAG-GAAATGATCTTACTC
* ** **
45379484 TTACTTCAATTTC-AGA-GATAAAGACTTGTTATCCAACTC
1 TTACTTCAATTTCAAGAGGAT-AGGAAATG--ATCTTACTC
* * *
45379523 -TACTTCAATTTCAAAAAGGGGATAGGAAAAGATCTTGCTC
1 TTACTTCAATTTC---AAGAGGATAGGAAATGATCTTACTC
* ** **
45379563 TTACTTCAATTTC-AGA-GATAAAGACTTGTTATCCAACTC
1 TTACTTCAATTTCAAGAGGAT-AGGAAATG--ATCTTACTC
* *
45379602 -TACTTCAATTTCAAAAGGGATAGGAAATGATCTTGCCTC
1 TTACTTCAATTTCAAGA-GGATAGGAAATGATCTT-ACTC
* ** *
45379641 TTACTTCAATTTC-AGA-GATAAAGACTTGTTATC-CAGCT-
1 TTACTTCAATTTCAAGAGGAT-AGGAAATG--ATCTTA-CTC
* *
45379679 TTACTTCAATTTCAAGAGGATAGGAAATGATGTTGCTC
1 TTACTTCAATTTCAAGAGGATAGGAAATGATCTTACTC
* ** * *
45379717 TTACTTCAATTTC-AGA-GATCAAGACTTGATATCCAGCT-
1 TTACTTCAATTTCAAGAGGAT-AGGAAATGATCT-TA-CTC
45379755 TTACTTCAATTTCAAGAGGATAGGAAATGATCTT
1 TTACTTCAATTTCAAGAGGATAGGAAATGATCTT
45379789 GCTGCAGTCT
Statistics
Matches: 338, Mismatches: 73, Indels: 93
0.67 0.14 0.18
Matches are distributed among these distances:
35 3 0.01
36 15 0.04
37 63 0.19
38 112 0.33
39 75 0.22
40 43 0.13
41 18 0.05
42 6 0.02
43 3 0.01
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.34
Consensus pattern (38 bp):
TTACTTCAATTTCAAGAGGATAGGAAATGATCTTACTC
Found at i:45379722 original size:233 final size:229
Alignment explanation
Indices: 45379246--45379791 Score: 882
Period size: 233 Copynumber: 2.4 Consensus size: 229
45379236 GGGGTTAAAA
*
45379246 ATGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTTATCCAGCTTTACTTCAATTTCAAGA
1 ATGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTG-TTATCCAGCTTTACTTCAATTTCAAGA
* *
45379311 GGAT-GGAAACGATCTTGCTCTTACTTCAATTTCAGAGATAATGACTTGTTATCCAACTCTACTT
65 GGATAGGAAAAGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTT
*
45379375 CAATTTCAAGAGGATAGGAAATGATCTTACTCTTACTTCAATTTCAGAGATAAGAGACGTGTTAT
130 CAATTTCAAAAGGATAGGAAATGATCTTACTCTTACTTCAATTTCAGAGATAAGAGACGTGTTAT
45379440 CCAGCTTTACTTCAATTTCAAGAGGATGAGAAACG
195 CCAGCTTTACTTCAATTTCAAGAGGATGAGAAACG
* * *
45379475 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAAAA
1 ATGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAGCTTTACTTCAATTTC---AA
*
45379540 GGGGATAGGAAAAGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTAC
63 GAGGATAGGAAAAGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTAC
* *
45379605 TTCAATTTCAAAAGGGATAGGAAATGATCTTGCCTCTTACTTCAATTTCAGAGATAA-AGACTTG
128 TTCAATTTCAAAA-GGATAGGAAATGATCTT-ACTCTTACTTCAATTTCAGAGATAAGAGACGTG
*
45379669 TTATCCAGCTTTACTTCAATTTCAAGAGGAT-AGGAAATG
191 TTATCCAGCTTTACTTCAATTTCAAGAGGATGA-GAAACG
* *
45379708 ATGTTGCTCTTACTTCAATTTCAGAGATCAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAG
1 ATGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAGCTTTACTTCAATTTCAAGAG
*
45379773 GATAGGAAATGATCTTGCT
66 GATAGGAAAAGATCTTGCT
45379792 GCAGTCTGAT
Statistics
Matches: 292, Mismatches: 18, Indels: 13
0.90 0.06 0.04
Matches are distributed among these distances:
228 21 0.07
229 35 0.12
230 22 0.08
231 7 0.02
232 69 0.24
233 114 0.39
234 24 0.08
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (229 bp):
ATGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAGCTTTACTTCAATTTCAAGAG
GATAGGAAAAGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTC
AATTTCAAAAGGATAGGAAATGATCTTACTCTTACTTCAATTTCAGAGATAAGAGACGTGTTATC
CAGCTTTACTTCAATTTCAAGAGGATGAGAAACG
Found at i:45392017 original size:60 final size:59
Alignment explanation
Indices: 45391880--45392187 Score: 406
Period size: 59 Copynumber: 5.2 Consensus size: 59
45391870 CTCAAGGGAC
* * *
45391880 AAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTT-GTGAAATCAGGGTTA
1 AAAATGGAATTTTGGAAAGTTCAGGGGTAAAATGGTAATTTTTGGTAAAATCGGGGTTA
*
45391938 AAAATGGAATTTTGGAAAGTTCAGGGGTAAAGTGGTAATTTTTGGTTAAAATCGGGGTTA
1 AAAATGGAATTTTGGAAAGTTCAGGGGTAAAATGGTAATTTTTGG-TAAAATCGGGGTTA
** * *
45391998 AAAATGGAATTTTGGAAAGTTTGGGGGTAAAATGGTAATTTTTAGTGAAATCGGGGTT-
1 AAAATGGAATTTTGGAAAGTTCAGGGGTAAAATGGTAATTTTTGGTAAAATCGGGGTTA
* * *
45392056 AAAATGGAATTTTGGAAAGTT-TGGGGAATAAAATGGTAATTTTTGGTACAATCGAGGTTA
1 AAAATGGAATTTTGGAAAGTTCAGGGG--TAAAATGGTAATTTTTGGTAAAATCGGGGTTA
* * * * **
45392116 AAAATAGAGTTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTCGGTAAAATTAGGGTTA
1 AAAATGGAATTTTGGAAAGTTCAGGGGTAAAATGGTAATTTTTGGTAAAATCGGGGTTA
*
45392175 AAAATAGAATTTT
1 AAAATGGAATTTT
45392188 CTAAAATTTT
Statistics
Matches: 221, Mismatches: 23, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
57 4 0.02
58 62 0.28
59 79 0.36
60 72 0.33
61 4 0.02
ACGTcount: A:0.36, C:0.03, G:0.28, T:0.34
Consensus pattern (59 bp):
AAAATGGAATTTTGGAAAGTTCAGGGGTAAAATGGTAATTTTTGGTAAAATCGGGGTTA
Found at i:45392087 original size:29 final size:29
Alignment explanation
Indices: 45391875--45392157 Score: 171
Period size: 30 Copynumber: 9.7 Consensus size: 29
45391865 GGACTCTCAA
*
45391875 GGGACAAAATGG-AATTTTGGAAAGTTCG
1 GGGATAAAATGGTAATTTTGGAAAGTTCG
* *
45391903 GGGGTAAAATGGTAATTTTTGTGAAA--TCA
1 GGGATAAAATGGTAA-TTTTG-GAAAGTTCG
*
45391932 GGGTTAAAAATGG-AATTTTGGAAAGTTCAG
1 GGGAT-AAAATGGTAATTTTGGAAAGTTC-G
* *
45391962 GGG-TAAAGTGGTAATTTTTGGTTAAA-ATCG
1 GGGATAAAATGGTAA-TTTTGG--AAAGTTCG
* *
45391992 GGGTTAAAAATGG-AATTTTGGAAAGTTTG
1 GGGAT-AAAATGGTAATTTTGGAAAGTTCG
*
45392021 GGGGTAAAATGGTAATTTTTAGTGAAA--TCG
1 GGGATAAAATGGTAA-TTTT-G-GAAAGTTCG
* *
45392051 GGGTTAAAATGG-AATTTTGGAAAGTTTG
1 GGGATAAAATGGTAATTTTGGAAAGTTCG
45392079 GGGAATAAAATGGTAATTTTTGGTACAA--TCG
1 GGG-ATAAAATGGTAA-TTTTGG-A-AAGTTCG
* * * * *
45392110 AGGTTAAAAATAG-AGTTTTGGAAAGTTTAG
1 GGGAT-AAAATGGTAATTTTGGAAAG-TTCG
45392140 GGG-TAAAATGGTAATTTT
1 GGGATAAAATGGTAATTTT
45392158 CGGTAAAATT
Statistics
Matches: 201, Mismatches: 24, Indels: 59
0.71 0.08 0.21
Matches are distributed among these distances:
26 4 0.02
27 7 0.03
28 47 0.23
29 45 0.22
30 56 0.28
31 26 0.13
32 14 0.07
33 2 0.01
ACGTcount: A:0.35, C:0.03, G:0.29, T:0.33
Consensus pattern (29 bp):
GGGATAAAATGGTAATTTTGGAAAGTTCG
Found at i:45392200 original size:30 final size:29
Alignment explanation
Indices: 45392111--45392207 Score: 81
Period size: 30 Copynumber: 3.3 Consensus size: 29
45392101 GTACAATCGA
* ** *
45392111 GGTTAAAAATAGAGTTTTGGAAAGTTTAG
1 GGTTAAAAATAGAATTTTCTAAAATTTAG
* *
45392140 GGGT-AAAATGGTAATTTTCGGTAAAA-TTAG
1 GGTTAAAAATAG-AATTTTC--TAAAATTTAG
45392170 GGTTAAAAATAGAATTTTCTAAAATTTTAG
1 GGTTAAAAATAGAATTTTCTAAAA-TTTAG
*
45392200 GGTCAAAA
1 GGTTAAAA
45392208 TGCAATTTCT
Statistics
Matches: 53, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
28 11 0.21
29 8 0.15
30 25 0.47
31 9 0.17
ACGTcount: A:0.40, C:0.03, G:0.23, T:0.34
Consensus pattern (29 bp):
GGTTAAAAATAGAATTTTCTAAAATTTAG
Found at i:45393029 original size:15 final size:16
Alignment explanation
Indices: 45393000--45393031 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
45392990 AAGACCAAAC
45393000 CCAGATCTGGGAAAAT
1 CCAGATCTGGGAAAAT
*
45393016 CCAGATCTGGAAAAAT
1 CCAGATCTGGGAAAAT
45393032 TTCTAAATCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.19, G:0.22, T:0.19
Consensus pattern (16 bp):
CCAGATCTGGGAAAAT
Found at i:45393360 original size:21 final size:21
Alignment explanation
Indices: 45393313--45393362 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 21
45393303 TTAATGCTTT
45393313 TATTT-AAAATTAATTAATAC
1 TATTTAAAAATTAATTAATAC
45393333 TATTTAAAACATTAATTAATAC
1 TATTTAAAA-ATTAATTAATAC
45393355 -ATTTAAAA
1 TATTTAAAA
45393363 TATTCAATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.18
21 11 0.39
22 12 0.43
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (21 bp):
TATTTAAAAATTAATTAATAC
Found at i:45393662 original size:30 final size:30
Alignment explanation
Indices: 45393604--45393663 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
45393594 TTGAAAAAGG
**
45393604 TTTGTATATTGATTTCAAGAACGGGGTTTT
1 TTTGTATATTGATTTCAAGAACAAGGTTTT
**
45393634 TTTGTATATTGATTTTGAGAACAAGGTTTT
1 TTTGTATATTGATTTCAAGAACAAGGTTTT
45393664 GTAACCCTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.25, C:0.05, G:0.22, T:0.48
Consensus pattern (30 bp):
TTTGTATATTGATTTCAAGAACAAGGTTTT
Found at i:45394110 original size:6 final size:6
Alignment explanation
Indices: 45394094--45394182 Score: 89
Period size: 6 Copynumber: 15.0 Consensus size: 6
45394084 TTAAATTTGT
**
45394094 TTTATAA TTTAAA TTTAAA TTTAAA TTT-AA GGTAAA TTTAAA TAATTAAA
1 TTTA-AA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T--TTAAA
45394144 TTTAAA TTTAAGA --TAAA TTTAAA TTTAAA --TAAA TTTAAA
1 TTTAAA TTTAA-A TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
45394183 ATCATTTTAA
Statistics
Matches: 70, Mismatches: 4, Indels: 17
0.77 0.04 0.19
Matches are distributed among these distances:
4 5 0.07
5 6 0.09
6 48 0.69
7 5 0.07
8 6 0.09
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (6 bp):
TTTAAA
Found at i:45394131 original size:11 final size:11
Alignment explanation
Indices: 45394115--45394165 Score: 52
Period size: 11 Copynumber: 4.8 Consensus size: 11
45394105 AATTTAAATT
*
45394115 TAAATTTAAGG
1 TAAATTTAAGA
45394126 TAAATTTAA-A
1 TAAATTTAAGA
* **
45394136 T-AATTAAATT
1 TAAATTTAAGA
45394146 TAAATTTAAGA
1 TAAATTTAAGA
45394157 TAAATTTAA
1 TAAATTTAA
45394166 ATTTAAATAA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
9 6 0.19
10 2 0.06
11 24 0.75
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (11 bp):
TAAATTTAAGA
Found at i:45394167 original size:37 final size:38
Alignment explanation
Indices: 45394106--45394182 Score: 95
Period size: 37 Copynumber: 2.0 Consensus size: 38
45394096 TATAATTTAA
*
45394106 ATTTAAATTTAAATTTAAGGTAAATTTAAATAA-TTAA
1 ATTTAAATTTAAATTAAAGGTAAATTTAAATAATTTAA
**
45394143 ATTTAAATTTAAGA-TAAATTTAAATTTAAATAAATTTAA
1 ATTTAAATTTAA-ATTAAAGGTAAATTTAAAT-AATTTAA
45394182 A
1 A
45394183 ATCATTTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
37 26 0.76
38 3 0.09
39 5 0.15
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (38 bp):
ATTTAAATTTAAATTAAAGGTAAATTTAAATAATTTAA
Found at i:45394184 original size:17 final size:16
Alignment explanation
Indices: 45394094--45394182 Score: 101
Period size: 17 Copynumber: 5.4 Consensus size: 16
45394084 TTAAATTTGT
45394094 TTTATAATTTAAATTTAAA
1 TTTA-AATTTAAA--TAAA
*
45394113 TTTAAATTTAAGGTAAA
1 TTTAAATTTAA-ATAAA
*
45394130 TTTAAA--TAATTAAA
1 TTTAAATTTAAATAAA
45394144 TTTAAATTTAAGATAAA
1 TTTAAATTTAA-ATAAA
45394161 TTTAAATTTAAATAAA
1 TTTAAATTTAAATAAA
45394177 TTTAAA
1 TTTAAA
45394183 ATCATTTTAA
Statistics
Matches: 63, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
14 10 0.16
15 3 0.05
16 14 0.22
17 25 0.40
18 7 0.11
19 4 0.06
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (16 bp):
TTTAAATTTAAATAAA
Found at i:45399139 original size:14 final size:14
Alignment explanation
Indices: 45399120--45399150 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
45399110 TTGTCGATTT
*
45399120 TTTTTTTTTTATAA
1 TTTTTTTATTATAA
45399134 TTTTTTTATTATAA
1 TTTTTTTATTATAA
45399148 TTT
1 TTT
45399151 ATTTCTTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTTTTATTATAA
Found at i:45407072 original size:3 final size:3
Alignment explanation
Indices: 45407064--45407091 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
45407054 TTTTGAGGTA
45407064 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
45407092 TATATTTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:45412399 original size:18 final size:18
Alignment explanation
Indices: 45412345--45412405 Score: 54
Period size: 18 Copynumber: 3.5 Consensus size: 18
45412335 CTTTACAAAA
45412345 AAAAAT-TATAAATATAT
1 AAAAATATATAAATATAT
** * *
45412362 TTAAGT-TATAAATTTAT
1 AAAAATATATAAATATAT
*
45412379 AAAAATATATAAATATGT
1 AAAAATATATAAATATAT
*
45412397 AAAATTATA
1 AAAAATATA
45412406 AAAAGTAAGC
Statistics
Matches: 33, Mismatches: 10, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
17 16 0.48
18 17 0.52
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.39
Consensus pattern (18 bp):
AAAAATATATAAATATAT
Found at i:45412408 original size:25 final size:24
Alignment explanation
Indices: 45412346--45412408 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
45412336 TTTACAAAAA
* *
45412346 AAAATTATAAATATATTTAAGTTAT
1 AAAATTATAAA-ATATATAAATTAT
* *
45412371 AAATTTATAAAAATATATAAATATGT
1 AAAATTAT-AAAATATATAAAT-TAT
45412397 AAAATTATAAAA
1 AAAATTATAAAA
45412409 AGTAAGCCTA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
25 19 0.61
26 12 0.39
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (24 bp):
AAAATTATAAAATATATAAATTAT
Found at i:45414540 original size:13 final size:15
Alignment explanation
Indices: 45414507--45414544 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
45414497 TTTTTAAGTG
*
45414507 TATAATATTTTATAT
1 TATATTATTTTATAT
45414522 TATATTATTTTA-A-
1 TATATTATTTTATAT
45414535 TATATTATTT
1 TATATTATTT
45414545 AGAACATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 10 0.45
14 1 0.05
15 11 0.50
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TATATTATTTTATAT
Found at i:45424369 original size:16 final size:15
Alignment explanation
Indices: 45424344--45424374 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
45424334 CTATTTTTGT
45424344 AAAAAAAATAAGAAG
1 AAAAAAAATAAGAAG
45424359 AAAAAATAATAAGAAG
1 AAAAAA-AATAAGAAG
45424375 CATGTTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (15 bp):
AAAAAAAATAAGAAG
Found at i:45424723 original size:20 final size:20
Alignment explanation
Indices: 45424698--45424741 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
45424688 TTTTTAGTCA
*
45424698 TTTTAAAGAAAAATTTAAAT
1 TTTTAAACAAAAATTTAAAT
* *
45424718 TTTTAAACAAAATTTTGAAT
1 TTTTAAACAAAAATTTAAAT
45424738 TTTT
1 TTTT
45424742 TTAATTATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (20 bp):
TTTTAAACAAAAATTTAAAT
Found at i:45431200 original size:21 final size:20
Alignment explanation
Indices: 45431176--45431221 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
45431166 TTGCAAAATT
* *
45431176 TTTATTTATTTTTATTTCATA
1 TTTATTTATTTTCATGTC-TA
45431197 TTTATTTATTTTCATGTCTA
1 TTTATTTATTTTCATGTCTA
45431217 TTTAT
1 TTTAT
45431222 ATTTATGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.22, C:0.07, G:0.02, T:0.70
Consensus pattern (20 bp):
TTTATTTATTTTCATGTCTA
Found at i:45431209 original size:16 final size:17
Alignment explanation
Indices: 45431178--45431225 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 17
45431168 GCAAAATTTT
*
45431178 TATTTATTTTTATTTCA
1 TATTTATTTATATTTCA
45431195 TATTTATTTAT-TTTCA
1 TATTTATTTATATTTCA
* *
45431211 TGTCTATTTATATTT
1 TATTTATTTATATTT
45431226 ATGTTTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
16 14 0.52
17 13 0.48
ACGTcount: A:0.23, C:0.06, G:0.02, T:0.69
Consensus pattern (17 bp):
TATTTATTTATATTTCA
Found at i:45439243 original size:40 final size:40
Alignment explanation
Indices: 45439182--45439272 Score: 103
Period size: 41 Copynumber: 2.3 Consensus size: 40
45439172 TTTACATAAA
* *
45439182 CGCCGCAAAAGGTAGAGCAATAG-GGCGCTTATCGGAAAG
1 CGCCGCTAAAGGTAGAGCAATAGTGACGCTTATCGGAAAG
* * *
45439221 CGCCGCTAAAGGTCAGATCAATAGTGACGTTTATGGGAAAG
1 CGCCGCTAAAGGT-AGAGCAATAGTGACGCTTATCGGAAAG
* *
45439262 TGCCGGTAAAG
1 CGCCGCTAAAG
45439273 ACCATGTTCT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
39 12 0.28
40 9 0.21
41 22 0.51
ACGTcount: A:0.32, C:0.19, G:0.32, T:0.18
Consensus pattern (40 bp):
CGCCGCTAAAGGTAGAGCAATAGTGACGCTTATCGGAAAG
Found at i:45439302 original size:42 final size:43
Alignment explanation
Indices: 45439254--45439334 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 43
45439244 GTGACGTTTA
* * * *
45439254 TGGG-AAAGTGCCGGTAAAGACCATGTTCTTTAGCGGCGATTG
1 TGGGAAAAGCGCCGCTAAAGAACATGTTCTATAGCGGCGATTG
45439296 TGGGAAAAGCGCCGCTAAAGAACATGTTCTATAGCGGCG
1 TGGGAAAAGCGCCGCTAAAGAACATGTTCTATAGCGGCG
45439335 TTATCTATAG
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
42 4 0.12
43 30 0.88
ACGTcount: A:0.27, C:0.19, G:0.32, T:0.22
Consensus pattern (43 bp):
TGGGAAAAGCGCCGCTAAAGAACATGTTCTATAGCGGCGATTG
Found at i:45454759 original size:41 final size:41
Alignment explanation
Indices: 45454730--45454927 Score: 326
Period size: 41 Copynumber: 4.8 Consensus size: 41
45454720 AAGATCAGAT
*
45454730 CAATAGCGGCGCATATGGAAAAGCGCCGCTAAAAGTCTAAG
1 CAATAGCGGCGCTTATGGAAAAGCGCCGCTAAAAGTCTAAG
*
45454771 CAATAGCGGCGCTTATGGAAAAGCGCCGGTAAAAGTCTAAG
1 CAATAGCGGCGCTTATGGAAAAGCGCCGCTAAAAGTCTAAG
* * *
45454812 CAATTGCGGTGCATATGGAAAAGCGCCG-TGAAAAGTCTAAG
1 CAATAGCGGCGCTTATGGAAAAGCGCCGCT-AAAAGTCTAAG
*
45454853 CAATAGCGGCGCTTATGGAAAAGTGCCGCTAAAAGTCTAAG
1 CAATAGCGGCGCTTATGGAAAAGCGCCGCTAAAAGTCTAAG
45454894 CAATAGCGGCGCTTATGGAAAAGCGCCGCTAAAA
1 CAATAGCGGCGCTTATGGAAAAGCGCCGCTAAAA
45454928 TTTTTACATT
Statistics
Matches: 145, Mismatches: 10, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
40 1 0.01
41 143 0.99
42 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.28, T:0.17
Consensus pattern (41 bp):
CAATAGCGGCGCTTATGGAAAAGCGCCGCTAAAAGTCTAAG
Found at i:45457120 original size:46 final size:42
Alignment explanation
Indices: 45457067--45457166 Score: 112
Period size: 42 Copynumber: 2.3 Consensus size: 42
45457057 CAAATACTTC
*
45457067 ATTATTTAATTACTT-AAATCAACCCAGTTAATTAATTAATTATTTA
1 ATTATTTAATTA-TTAAAAACAACCCA---AA-TAATTAATTATTTA
* * *
45457113 TTTATTTAAATATTAAAAACAACCCAAATATTTAATTATTTA
1 ATTATTTAATTATTAAAAACAACCCAAATAATTAATTATTTA
45457155 ATTATTTAATTA
1 ATTATTTAATTA
45457167 AATATTTAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
42 23 0.49
43 2 0.04
45 2 0.04
46 20 0.43
ACGTcount: A:0.44, C:0.09, G:0.01, T:0.46
Consensus pattern (42 bp):
ATTATTTAATTATTAAAAACAACCCAAATAATTAATTATTTA
Found at i:45457180 original size:8 final size:8
Alignment explanation
Indices: 45457141--45457166 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
45457131 ACAACCCAAA
45457141 TATTTAAT
1 TATTTAAT
45457149 TATTTAAT
1 TATTTAAT
45457157 TATTTAAT
1 TATTTAAT
45457165 TA
1 TA
45457167 AATATTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATTTAAT
Found at i:45457283 original size:13 final size:14
Alignment explanation
Indices: 45457265--45457295 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
45457255 TATTAAAAAC
45457265 AATTC-AAATATTT
1 AATTCAAAATATTT
45457278 AATTCAAAATATTT
1 AATTCAAAATATTT
45457292 AATT
1 AATT
45457296 ATTTAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (14 bp):
AATTCAAAATATTT
Found at i:45457307 original size:12 final size:12
Alignment explanation
Indices: 45457290--45457316 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
45457280 TTCAAAATAT
45457290 TTAATTATTTAA
1 TTAATTATTTAA
45457302 TTAATTATTTAA
1 TTAATTATTTAA
45457314 TTA
1 TTA
45457317 TTAAAAACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TTAATTATTTAA
Found at i:45457340 original size:34 final size:33
Alignment explanation
Indices: 45457299--45457386 Score: 122
Period size: 34 Copynumber: 2.6 Consensus size: 33
45457289 TTTAATTATT
45457299 TAATTAATTATTTAATTATTAAAAACAACCCAAA
1 TAATTAATTATTTAATTATT-AAAACAACCCAAA
* * *
45457333 TACTTAATTATTTAATTAGTTAAATCAACCCAAT
1 TAATTAATTATTTAATTA-TTAAAACAACCCAAA
*
45457367 TAATTAATTAATTAATTATT
1 TAATTAATTATTTAATTATT
45457387 TATTTATATA
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
33 2 0.04
34 44 0.92
35 2 0.04
ACGTcount: A:0.47, C:0.10, G:0.01, T:0.42
Consensus pattern (33 bp):
TAATTAATTATTTAATTATTAAAACAACCCAAA
Found at i:45457431 original size:13 final size:13
Alignment explanation
Indices: 45457413--45457467 Score: 58
Period size: 13 Copynumber: 4.0 Consensus size: 13
45457403 AAAAACAACC
45457413 CAAATATTTAATT
1 CAAATATTTAATT
45457426 CAAATATTTAATT
1 CAAATATTTAATT
*
45457439 ATATTAATTATTTAATT
1 -CA--AA-TATTTAATT
45457456 -AAATATTTAATT
1 CAAATATTTAATT
45457468 ATTAAAAACA
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
12 9 0.24
13 15 0.41
14 1 0.03
15 1 0.03
16 2 0.05
17 9 0.24
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (13 bp):
CAAATATTTAATT
Found at i:45457454 original size:84 final size:84
Alignment explanation
Indices: 45457290--45457750 Score: 270
Period size: 76 Copynumber: 5.8 Consensus size: 84
45457280 TTCAAAATAT
* * * * ** *
45457290 TTAATTATTTAATTAATTATTTAATTATTAAAAACAACCCAAATACTTAATTATTTAATTAGTTA
1 TTAATTAATTATTTAATTATATAAATATTAAAAACAACCCAAATACTTAATTAAATAATTAATTA
45457355 AATCAACCCAATTAATTAA
66 AATCAACCCAATTAATTAA
* * *
45457374 TTAATTAATTATTTATTTATATAAATATTAAAAACAACCCAAATATTTAATTCAAATATTTAATT
1 TTAATTAATTATTTAATTATATAAATATTAAAAACAACCCAAATACTTAATT-AAATAATTAATT
*
45457439 --AT-------ATTAATTAT
65 AAATCAACCCAATTAATTAA
* ** * ** * * *
45457450 TTAATTAAATATTTAATTAT-TAAA-AACAACCCAAA-TACTTAATTATTTAATT--------AG
1 TTAATTAATTATTTAATTATATAAATATTAA---AAACAACCCAAATACTTAATTAAATAATTAA
45457504 TTAAATCAACCCAATTAATTAA
63 TTAAATCAACCCAATTAATTAA
* * * * *
45457526 TTAATTAATTAATTGATTATATAAATATTAAAAACAACCCAAATATTTAATTCAA-AA-T-ATTT
1 TTAATTAATTATTTAATTATATAAATATTAAAAACAACCCAAATACTTAATTAAATAATTAATTA
* * * *
45457588 AAT-TA--TATTTAATTAT
66 AATCAACCCAATTAATTAA
* ** *
45457604 TTAATTAAATATTT-A--AT-T----ATTAAAAACAACCCAAATACTTAATTATTTAATTAGTTA
1 TTAATTAATTATTTAATTATATAAATATTAAAAACAACCCAAATACTTAATTAAATAATTAATTA
45457661 AATCAACCCAATTTAATTAA
66 AATCAACCCAA-TTAATTAA
* * *
45457681 TTAATTAATTAATTAATTAATTATTAAATATTAAAAACAACCCAAATATTTAATTCAAAATATTT
1 TTAATTAATTATTTAATT-A-TA-TAAATATTAAAAACAACCCAAATACTTAATT--AAATAATT
45457746 AATTA
61 AATTA
45457751 TTTAATTATA
Statistics
Matches: 280, Mismatches: 55, Indels: 78
0.68 0.13 0.19
Matches are distributed among these distances:
67 3 0.01
69 2 0.01
70 25 0.09
71 2 0.01
72 1 0.00
73 5 0.02
74 5 0.02
75 9 0.03
76 78 0.28
77 27 0.10
78 24 0.09
80 1 0.00
81 6 0.02
82 1 0.00
83 2 0.01
84 47 0.17
85 8 0.03
88 25 0.09
90 9 0.03
ACGTcount: A:0.48, C:0.09, G:0.01, T:0.42
Consensus pattern (84 bp):
TTAATTAATTATTTAATTATATAAATATTAAAAACAACCCAAATACTTAATTAAATAATTAATTA
AATCAACCCAATTAATTAA
Found at i:45457490 original size:152 final size:155
Alignment explanation
Indices: 45457286--45457805 Score: 870
Period size: 152 Copynumber: 3.3 Consensus size: 155
45457276 TTAATTCAAA
*
45457286 ATATTTAATTATTTAATTAATTATTTAATTATTAAAAACAACCCAAATACTTAATTATTTAATTA
1 ATATTTAATTATTTAATTAAATATTTAATTATTAAAAACAACCCAAATACTTAATTATTTAATTA
*
45457351 GTTAAATCAACCCAATTAATTAATTAATTAATT-ATTTATTTATATAAATATTAAAAACAACCCA
66 GTTAAATCAACCCAATTAATTAATTAATTAATTAATTAATTTATATAAATATTAAAAACAACCCA
45457415 AATATTTAATTC-AAATATTTAATT
131 AATATTTAATTCAAAATATTTAATT
45457439 ATA-TTAATTATTTAATTAAATATTTAATTATTAAAAACAACCCAAATACTTAATTATTTAATTA
1 ATATTTAATTATTTAATTAAATATTTAATTATTAAAAACAACCCAAATACTTAATTATTTAATTA
*
45457503 GTTAAATCAACCCAATTAATTAATTAATTAATTAATTGA-TTATATAAATATTAAAAACAACCCA
66 GTTAAATCAACCCAATTAATTAATTAATTAATTAATTAATTTATATAAATATTAAAAACAACCCA
45457567 AATATTTAATTCAAAATATTTAATT
131 AATATTTAATTCAAAATATTTAATT
45457592 ATATTTAATTATTTAATTAAATATTTAATTATTAAAAACAACCCAAATACTTAATTATTTAATTA
1 ATATTTAATTATTTAATTAAATATTTAATTATTAAAAACAACCCAAATACTTAATTATTTAATTA
*
45457657 GTTAAATCAACCCAATTTAATTAATTAATTAATTAATTAATTAATTATTAAATATTAAAAACAAC
66 GTTAAATCAACCCAA-TTAATTAATTAATTAATTAATTAATTTA-TA-TAAATATTAAAAACAAC
45457722 CCAAATATTTAATTCAAAATATTTAATT
128 CCAAATATTTAATTCAAAATATTTAATT
45457750 ATTTAATTATATTTACTTATTTAATTAAATATTTAATTATT-AAAACAACCCAAATA
1 A--T-ATT-TA---A-TTATTTAATTAAATATTTAATTATTAAAAACAACCCAAATA
45457806 ATTTTGATGA
Statistics
Matches: 348, Mismatches: 4, Indels: 18
0.94 0.01 0.05
Matches are distributed among these distances:
152 130 0.37
153 22 0.06
154 76 0.22
155 23 0.07
156 2 0.01
157 2 0.01
158 46 0.13
160 1 0.00
161 3 0.01
162 2 0.01
165 16 0.05
166 25 0.07
ACGTcount: A:0.48, C:0.09, G:0.01, T:0.42
Consensus pattern (155 bp):
ATATTTAATTATTTAATTAAATATTTAATTATTAAAAACAACCCAAATACTTAATTATTTAATTA
GTTAAATCAACCCAATTAATTAATTAATTAATTAATTAATTTATATAAATATTAAAAACAACCCA
AATATTTAATTCAAAATATTTAATT
Found at i:45457499 original size:34 final size:34
Alignment explanation
Indices: 45457451--45457536 Score: 111
Period size: 34 Copynumber: 2.5 Consensus size: 34
45457441 ATTAATTATT
*
45457451 TAATTAAATATTTAATTA-TTAAAAACAACCCAAA
1 TAATTAATTATTTAATTAGTT-AAAACAACCCAAA
* * *
45457485 TACTTAATTATTTAATTAGTTAAATCAACCCAAT
1 TAATTAATTATTTAATTAGTTAAAACAACCCAAA
*
45457519 TAATTAATTAATTAATTA
1 TAATTAATTATTTAATTA
45457537 ATTGATTATA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
34 43 0.96
35 2 0.04
ACGTcount: A:0.49, C:0.10, G:0.01, T:0.40
Consensus pattern (34 bp):
TAATTAATTATTTAATTAGTTAAAACAACCCAAA
Found at i:45457617 original size:20 final size:18
Alignment explanation
Indices: 45457583--45457624 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 18
45457573 TAATTCAAAA
45457583 TATTTAATTATATTTAAT
1 TATTTAATTATATTTAAT
45457601 TATTTAATTAAATATTTAAT
1 TATTTAATT--ATATTTAAT
45457621 TATT
1 TATT
45457625 AAAAACAACC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 9 0.41
20 13 0.59
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TATTTAATTATATTTAAT
Found at i:45457682 original size:4 final size:4
Alignment explanation
Indices: 45457673--45457707 Score: 63
Period size: 4 Copynumber: 9.0 Consensus size: 4
45457663 TCAACCCAAT
45457673 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TT-A TTAA
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA
45457708 ATATTAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 3 0.10
4 27 0.90
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (4 bp):
TTAA
Found at i:45457752 original size:22 final size:20
Alignment explanation
Indices: 45457727--45457790 Score: 87
Period size: 18 Copynumber: 3.2 Consensus size: 20
45457717 ACAACCCAAA
45457727 TATTTAATTCAAAATATTTAAT
1 TATTTAATT--AAATATTTAAT
*
45457749 TATTTAATT--ATATTTACT
1 TATTTAATTAAATATTTAAT
45457767 TATTTAATTAAATATTTAAT
1 TATTTAATTAAATATTTAAT
45457787 TATT
1 TATT
45457791 AAAACAACCC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
18 17 0.45
20 12 0.32
22 9 0.24
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (20 bp):
TATTTAATTAAATATTTAAT
Found at i:45463961 original size:86 final size:85
Alignment explanation
Indices: 45463826--45464029 Score: 225
Period size: 86 Copynumber: 2.4 Consensus size: 85
45463816 ATCTGTTAAT
* * * * *
45463826 TTTAGCGGCGTTTGTGGAAAAAACGCCGCTAAAGAACACTATTTATAGCGGCGTTTTTGGAGT-A
1 TTTAGCGGCGTTTATTG-ATAAACGCCGCTAAAGAACACTATTTATAGCGGCGTTTGTAG-GTAA
45463890 AGCGCCGCTAAAGACCATGTTC
64 AGCGCCGCTAAAGACCATGTTC
* *
45463912 TTTAGCGGCGTTTATTGATAAAGCGCCGCTAAAGGACA-TGGTCTT-TAGCGGCGTTTGTAGGTA
1 TTTAGCGGCGTTTATTGATAAA-CGCCGCTAAAGAACACT-AT-TTATAGCGGCGTTTGTAGGTA
*
45463975 AAGCGCCGCTAAATACCATGTTC
63 AAGCGCCGCTAAAGACCATGTTC
* * *
45463998 TTTTGCGGCGGTTTTTTTTATAAACGCCGCTA
1 TTTAGCGGC-G-TTTATTGATAAACGCCGCTA
45464030 TTTTTAACGG
Statistics
Matches: 101, Mismatches: 11, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
85 7 0.07
86 73 0.72
87 11 0.11
88 10 0.10
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (85 bp):
TTTAGCGGCGTTTATTGATAAACGCCGCTAAAGAACACTATTTATAGCGGCGTTTGTAGGTAAAG
CGCCGCTAAAGACCATGTTC
Found at i:45464000 original size:43 final size:42
Alignment explanation
Indices: 45463826--45464007 Score: 181
Period size: 43 Copynumber: 4.2 Consensus size: 42
45463816 ATCTGTTAAT
* * * *
45463826 TTTAGCGGCGTTTGTGGAAAAAACGCCGCTAAAGAACACTATT-
1 TTTAGCGGCGTTTGTGG-TAAAGCGCCGCTAAAGACCA-TGTTC
* *
45463869 TATAGCGGCGTTTTTGG-AGTAAGCGCCGCTAAAGACCATGTTC
1 TTTAGCGGCGTTTGTGGTA--AAGCGCCGCTAAAGACCATGTTC
* * *
45463912 TTTAGCGGCGTTTATTGATAAAGCGCCGCTAAAGGA-CATGGTC
1 TTTAGCGGCGTTT-GTGGTAAAGCGCCGCTAAA-GACCATGTTC
*
45463955 TTTAGCGGCGTTTGTAGGTAAAGCGCCGCTAAATACCATGTTC
1 TTTAGCGGCGTTTGT-GGTAAAGCGCCGCTAAAGACCATGTTC
*
45463998 TTTTGCGGCG
1 TTTAGCGGCG
45464008 GTTTTTTTTA
Statistics
Matches: 118, Mismatches: 13, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
41 1 0.01
42 5 0.04
43 106 0.90
44 5 0.04
45 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.29
Consensus pattern (42 bp):
TTTAGCGGCGTTTGTGGTAAAGCGCCGCTAAAGACCATGTTC
Found at i:45465482 original size:3 final size:3
Alignment explanation
Indices: 45465474--45465516 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
45465464 AACACTTTTC
45465474 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
45465517 GTTCCAGGTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:45469374 original size:20 final size:20
Alignment explanation
Indices: 45469351--45469402 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
45469341 CTTTGCCAAC
* *
45469351 TGCTTGTTGATGCTACTCGA
1 TGCTGGTTGATGCTACTCAA
* *
45469371 TGCTGGCTGATGCTGCTCAA
1 TGCTGGTTGATGCTACTCAA
45469391 TGCTGGTTGATG
1 TGCTGGTTGATG
45469403 TATTTGGCTC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.13, C:0.19, G:0.31, T:0.37
Consensus pattern (20 bp):
TGCTGGTTGATGCTACTCAA
Found at i:45473684 original size:30 final size:30
Alignment explanation
Indices: 45473648--45473853 Score: 229
Period size: 30 Copynumber: 6.8 Consensus size: 30
45473638 TAAAAGGTCT
* *
45473648 CTAAACTTTTCAAAAATTATATTTTGACCC
1 CTAAACTTTTCCAAAATTATATTTTAACCC
45473678 CTAAACTTTTCCAAAATTATATTTTAACCC
1 CTAAACTTTTCCAAAATTATATTTTAACCC
*
45473708 CTAAACCTTTT-CAAAATTACATTTTAA-CC
1 CTAAA-CTTTTCCAAAATTATATTTTAACCC
* * *
45473737 CTCAAACTTTTCTAAAATCATATTTTAACCT
1 CT-AAACTTTTCCAAAATTATATTTTAACCC
* * *
45473768 CTAAAGTTTTTCAAAATTACATTTTAACCC
1 CTAAACTTTTCCAAAATTATATTTTAACCC
* * *
45473798 CTAAAATGTTTCCAAAATCACATTTTAA-CC
1 CTAAACT-TTTCCAAAATTATATTTTAACCC
**
45473828 CTCAAACTTTTCCAAAACCATATTTT
1 CT-AAACTTTTCCAAAATTATATTTT
45473854 TGACCCTCGA
Statistics
Matches: 151, Mismatches: 19, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
29 9 0.06
30 112 0.74
31 30 0.20
ACGTcount: A:0.37, C:0.23, G:0.01, T:0.39
Consensus pattern (30 bp):
CTAAACTTTTCCAAAATTATATTTTAACCC
Found at i:45476120 original size:5 final size:5
Alignment explanation
Indices: 45476110--45476139 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
45476100 TTCAATGAAC
*
45476110 AAAAG AAAAG AAAAG AAAAA AAAAG AAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG
45476140 GAGAGGTCGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:45477393 original size:50 final size:49
Alignment explanation
Indices: 45477289--45477626 Score: 371
Period size: 50 Copynumber: 6.9 Consensus size: 49
45477279 CAGCACCATG
* * * *
45477289 AAACACGACAGGAAAGATCTAACGCCACAA--ACGAATCCAGTACCACGA
1 AAACACGACGGGAAAGATCTAA-GCCGCAACGGCGGATCCAGTACCACGA
45477337 AAACACGACGGGAAAGATCTAAGGCCGCAACGGCGGATCCAGTACCACGA
1 AAACACGACGGGAAAGATCTAA-GCCGCAACGGCGGATCCAGTACCACGA
* *
45477387 AAACACGACGGGAAAGATCTAAGACCGCAACGACGGATCCAGTACCGCGA
1 AAACACGACGGGAAAGATCTAAG-CCGCAACGGCGGATCCAGTACCACGA
* * *
45477437 AGACAC-AAGGGAAAGATCTAAGCCGCGACGGCGGATCCAGTACCACGA
1 AAACACGACGGGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACGA
* * * * *
45477485 AGACA--TCGGGAAAAATCTAAGCCGCGACGACGGATCCAGTACCACGA
1 AAACACGACGGGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACGA
* * * * * *
45477532 AAACACGACGAGAAAGATCTAAGACTGTAACGGCAGATCCAGTATCGCGA
1 AAACACGACGGGAAAGATCTAAG-CCGCAACGGCGGATCCAGTACCACGA
* * * * * *
45477582 AGACATGAAGGGAAAGATCTAAGCCACGACGGCAGATCCAGTACC
1 AAACACGACGGGAAAGATCTAAGCCGCAACGGCGGATCCAGTACC
45477627 CCAAAGATTT
Statistics
Matches: 248, Mismatches: 36, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
47 42 0.17
48 55 0.22
49 46 0.19
50 105 0.42
ACGTcount: A:0.38, C:0.27, G:0.25, T:0.10
Consensus pattern (49 bp):
AAACACGACGGGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACGA
Found at i:45477913 original size:92 final size:92
Alignment explanation
Indices: 45477751--45478303 Score: 856
Period size: 92 Copynumber: 5.9 Consensus size: 92
45477741 ATCAAAAACA
45477751 ATAGCAAGTCTTTATCTCTCTGAAGTTCTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCT
1 ATAGCAAGTCTTTATCTCTCTGAAGTTCTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCT
*
45477816 ATCCTCTTGAAATTGCAGTAAAGTTGG
66 ATCCTCTTGAAGTTGCAGTAAAGTTGG
* *
45477843 ATAGTAAGTCATTATCTCTCTGAAGTTCTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCT
1 ATAGCAAGTCTTTATCTCTCTGAAGTTCTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCT
45477908 ATCCTCTTGAAGTTGCAGTAAAGTTGG
66 ATCCTCTTGAAGTTGCAGTAAAGTTGG
*
45477935 ATAGCAAGTCTTTATCTCTCTGAAGTTCTAGTAAGAGTAAGATGAAGCTTCAAACATCAATTCCT
1 ATAGCAAGTCTTTATCTCTCTGAAGTTCTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCT
* * *
45478000 ATCCTCTTAAAGTTGCAGTAAAGCTAG
66 ATCCTCTTGAAGTTGCAGTAAAGTTGG
45478027 ATAGCAAGTCTTTATCTCTCTGAAGTTCTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCT
1 ATAGCAAGTCTTTATCTCTCTGAAGTTCTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCT
45478092 ATCCTCTTGAAGTTGCAGTAAAGTTGG
66 ATCCTCTTGAAGTTGCAGTAAAGTTGG
*
45478119 ATAGCAAATCTTTATCTCTCTGAAGTTCTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCT
1 ATAGCAAGTCTTTATCTCTCTGAAGTTCTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCT
45478184 ATCCTCTTGAAGTTGCAGTAAAGTTGG
66 ATCCTCTTGAAGTTGCAGTAAAGTTGG
* * *
45478211 ATTAAAAAATAATAACAAGTCATTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTC-AA
1 -----------ATAGCAAGTCTTTATCTCTCTGAAGTTCTAGTAAGAGCAAGATGAAGCTTCAAA
* * * * *
45478275 CATCAAATCTTATCTTCCTGAAGATGCAG
55 CATCAATTCCTATCCTCTTGAAGTTGCAG
45478304 CGAAATTGGA
Statistics
Matches: 427, Mismatches: 23, Indels: 12
0.92 0.05 0.03
Matches are distributed among these distances:
92 354 0.83
102 26 0.06
103 47 0.11
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (92 bp):
ATAGCAAGTCTTTATCTCTCTGAAGTTCTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCT
ATCCTCTTGAAGTTGCAGTAAAGTTGG
Found at i:45478112 original size:52 final size:52
Alignment explanation
Indices: 45478042--45478197 Score: 160
Period size: 52 Copynumber: 3.2 Consensus size: 52
45478032 AAGTCTTTAT
45478042 CTCTCTGAAGTTCTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATC
1 CTCT-TGAAGTTCTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATC
***
45478095 CTCTTGAAGTTGC-AGTAA-AGTTGGAT--AG---C-AA-ATC--TT--TATC
1 CTCTTGAAGTT-CTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATC
45478135 TCTC-TGAAGTTCTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATC
1 -CTCTTGAAGTTCTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATC
45478187 CTCTTGAAGTT
1 CTCTTGAAGTT
45478198 GCAGTAAAGT
Statistics
Matches: 81, Mismatches: 6, Indels: 33
0.68 0.05 0.28
Matches are distributed among these distances:
39 1 0.01
40 16 0.20
41 8 0.10
42 2 0.02
43 2 0.02
44 3 0.04
45 2 0.02
46 2 0.02
47 2 0.02
48 3 0.04
49 2 0.02
50 2 0.02
51 8 0.10
52 23 0.28
53 5 0.06
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (52 bp):
CTCTTGAAGTTCTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATC
Found at i:45478288 original size:51 final size:52
Alignment explanation
Indices: 45478123--45478297 Score: 137
Period size: 51 Copynumber: 3.4 Consensus size: 52
45478113 AGTTGGATAG
* *
45478123 CAAATCTTTATCTCTCTGAAGTTCTAGTAAGAGCAAGATGAAGCTTCAAACAT
1 CAAATCATTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTC-AACAT
* * * *** * *** * *
45478176 CAATTC-CTATC-CTCTTGAAGTTGCAGTAA-AGTTGGATTAAAAAAT-AATAA
1 CAAATCATTATCTCTC-TGAAGTTGTAGTAAGAGCAAGA-TGAAGCTTCAACAT
*
45478226 CAAGTCATTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAACAT
1 CAAATCATTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAACAT
45478278 CAAATC-TTATCT-TCCTGAAG
1 CAAATCATTATCTCT-CTGAAG
45478298 ATGCAGCGAA
Statistics
Matches: 89, Mismatches: 26, Indels: 16
0.68 0.20 0.12
Matches are distributed among these distances:
50 9 0.10
51 40 0.45
52 35 0.39
53 5 0.06
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (52 bp):
CAAATCATTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAACAT
Found at i:45478355 original size:103 final size:103
Alignment explanation
Indices: 45478130--45478319 Score: 285
Period size: 103 Copynumber: 1.9 Consensus size: 103
45478120 TAGCAAATCT
* * *
45478130 TTATCTCTCTGAAGTTCTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATCCTCTTGAA
1 TTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAAATCCTATCCTCCTGAA
* * *
45478195 GTTGCAGTAAAGTTGGATTAAAAAATAATAACAAGTCA
66 GATGCAGGAAAGTTGGATTAAAAAATAACAACAAGTCA
* *
45478233 TTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTC-AACATCAAATCTTATCTTCCTGAA
1 TTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAAATCCTATCCTCCTGAA
45478297 GATGCAGCGAAA-TTGGATTAAAA
66 GATGCAG-GAAAGTTGGATTAAAA
45478320 CTACAGCAGC
Statistics
Matches: 79, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
102 37 0.47
103 42 0.53
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.30
Consensus pattern (103 bp):
TTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAAATCCTATCCTCCTGAA
GATGCAGGAAAGTTGGATTAAAAAATAACAACAAGTCA
Found at i:45478443 original size:38 final size:39
Alignment explanation
Indices: 45478386--45478472 Score: 122
Period size: 38 Copynumber: 2.3 Consensus size: 39
45478376 TCATCAACCA
*
45478386 ATCTCTTACCCCGAGCCTGGGGCAAATTGCAGCCATTTG
1 ATCTCTTACCCCGAGCCTGGGGCAAATTGCAACCATTTG
* * *
45478425 ATCTTTTA-CCCGAGCCTGGGGCAGATTGCAACCATTCG
1 ATCTCTTACCCCGAGCCTGGGGCAAATTGCAACCATTTG
*
45478463 GTCTCTTACC
1 ATCTCTTACC
45478473 TTAAGCCTGA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
38 33 0.80
39 8 0.20
ACGTcount: A:0.20, C:0.31, G:0.22, T:0.28
Consensus pattern (39 bp):
ATCTCTTACCCCGAGCCTGGGGCAAATTGCAACCATTTG
Found at i:45479181 original size:17 final size:17
Alignment explanation
Indices: 45479149--45479243 Score: 93
Period size: 17 Copynumber: 5.5 Consensus size: 17
45479139 CCGATTTTAG
*
45479149 ATTTTAAATCTT-AATTC
1 ATTTTAAAT-TTAAATTT
*
45479166 ATTTTAAGTTTAAATTT
1 ATTTTAAATTTAAATTT
* **
45479183 ATTGTAAATTTAAGCTT
1 ATTTTAAATTTAAATTT
** *
45479200 ATTTGGAGTTTAAATTT
1 ATTTTAAATTTAAATTT
45479217 ATTTTAAATTTAAATTT
1 ATTTTAAATTTAAATTT
45479234 ATTTTGAAAT
1 ATTTT-AAAT
45479244 AAAAATTTAA
Statistics
Matches: 61, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
16 2 0.03
17 55 0.90
18 4 0.07
ACGTcount: A:0.36, C:0.03, G:0.07, T:0.54
Consensus pattern (17 bp):
ATTTTAAATTTAAATTT
Found at i:45479236 original size:34 final size:34
Alignment explanation
Indices: 45479149--45479237 Score: 108
Period size: 34 Copynumber: 2.6 Consensus size: 34
45479139 CCGATTTTAG
* *
45479149 ATTTTAAATCTT-AATTCATTTTAAGTTTAAATTT
1 ATTTTAAAT-TTAAATTTATTTGAAGTTTAAATTT
* ** *
45479183 ATTGTAAATTTAAGCTTATTTGGAGTTTAAATTT
1 ATTTTAAATTTAAATTTATTTGAAGTTTAAATTT
45479217 ATTTTAAATTTAAATTTATTT
1 ATTTTAAATTTAAATTTATTT
45479238 TGAAATAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
33 2 0.04
34 43 0.96
ACGTcount: A:0.35, C:0.03, G:0.07, T:0.55
Consensus pattern (34 bp):
ATTTTAAATTTAAATTTATTTGAAGTTTAAATTT
Found at i:45479249 original size:18 final size:17
Alignment explanation
Indices: 45479211--45479252 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
45479201 TTTGGAGTTT
**
45479211 AAATTTATTTTAAATTT
1 AAATTTATTTTAAATAA
45479228 AAATTTATTTTGAAATAA
1 AAATTTATTTT-AAATAA
45479246 AAATTTA
1 AAATTTA
45479253 AAGTCCAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 11 0.50
18 11 0.50
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (17 bp):
AAATTTATTTTAAATAA
Found at i:45480808 original size:30 final size:30
Alignment explanation
Indices: 45480774--45480995 Score: 227
Period size: 30 Copynumber: 7.4 Consensus size: 30
45480764 GGTCTCCAAC
*
45480774 CTTTTCCAAAATTACATTTTGACCCTTAAA
1 CTTTTCCAAAATTACATTTTAACCCTTAAA
** * *
45480804 CTTTTTTAATTAA-TA-TTTTTAACCCCTAAA
1 CTTTTCCAA--AATTACATTTTAACCCTTAAA
*
45480834 CTTTTCCAAAATTACATTTTAACCCCTAAA
1 CTTTTCCAAAATTACATTTTAACCCTTAAA
*
45480864 CTTTTCCAAAATTACATTTTAACCCTCAAA
1 CTTTTCCAAAATTACATTTTAACCCTTAAA
* * * *
45480894 CTTTTCCAAAATCATATTTTAACCTTTAAT
1 CTTTTCCAAAATTACATTTTAACCCTTAAA
* * *
45480924 GTTTT-CAAAATTACATTTTGACCCCTCAAA
1 CTTTTCCAAAATTACATTTT-AACCCTTAAA
* * *
45480954 -TGTTTCCAAAATCACATTTTAATCCATAAA
1 CT-TTTCCAAAATTACATTTTAACCCTTAAA
45480984 CTTTTCCAAAAT
1 CTTTTCCAAAAT
45480996 CATATTTTCG
Statistics
Matches: 157, Mismatches: 27, Indels: 16
0.79 0.14 0.08
Matches are distributed among these distances:
28 2 0.01
29 15 0.10
30 122 0.78
31 16 0.10
32 2 0.01
ACGTcount: A:0.35, C:0.23, G:0.02, T:0.41
Consensus pattern (30 bp):
CTTTTCCAAAATTACATTTTAACCCTTAAA
Found at i:45480884 original size:60 final size:61
Alignment explanation
Indices: 45480774--45481017 Score: 250
Period size: 60 Copynumber: 4.0 Consensus size: 61
45480764 GGTCTCCAAC
* * ** *
45480774 CTTTTCCAAAATTACATTTTGACCCTTAAACTTTTTTAATTAA-TA-TTTTTAACCCCT-AAA
1 CTTTTCCAAAATCACATTTTAACCCTTAAACTTTTCCAA--AATTACATTTTAACCCCTCAAA
* *
45480834 CTTTTCCAAAATTACATTTTAACCCCTAAACTTTTCCAAAATTACATTTTAA-CCCTCAAA
1 CTTTTCCAAAATCACATTTTAACCCTTAAACTTTTCCAAAATTACATTTTAACCCCTCAAA
* * ** *
45480894 CTTTTCCAAAATCATATTTTAACCTTTAATGTTTT-CAAAATTACATTTTGACCCCTCAAA
1 CTTTTCCAAAATCACATTTTAACCCTTAAACTTTTCCAAAATTACATTTTAACCCCTCAAA
* * * * *
45480954 -TGTTTCCAAAATCACATTTTAATCCATAAACTTTTCCAAAATCATATTTTCGA-CCCTCAAA
1 CT-TTTCCAAAATCACATTTTAACCCTTAAACTTTTCCAAAATTACATTTT-AACCCCTCAAA
45481015 CTT
1 CTT
45481018 CTTTAAAATT
Statistics
Matches: 156, Mismatches: 20, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
58 2 0.01
59 22 0.14
60 108 0.69
61 21 0.13
62 3 0.02
ACGTcount: A:0.34, C:0.23, G:0.02, T:0.40
Consensus pattern (61 bp):
CTTTTCCAAAATCACATTTTAACCCTTAAACTTTTCCAAAATTACATTTTAACCCCTCAAA
Found at i:45480929 original size:90 final size:89
Alignment explanation
Indices: 45480774--45481034 Score: 280
Period size: 90 Copynumber: 2.9 Consensus size: 89
45480764 GGTCTCCAAC
* **
45480774 CTTTTCCAAAATTACATTTTGACCCTTAAACTTTTTTAATTAAT-AT-TTTTAACCCCTAAACTT
1 CTTTTCCAAAATTACATTTTAACCC-TAAACTTTTCCAA--AATCATATTTTAACCCCTAAACTT
45480837 TTCCAAAATTACATTTTAACCCCT-AAA
63 TT-CAAAATTACATTTTAACCCCTCAAA
** **
45480864 CTTTTCCAAAATTACATTTTAACCCTCAAACTTTTCCAAAATCATATTTTAACCTTTAATGTTTT
1 CTTTTCCAAAATTACATTTTAACCCT-AAACTTTTCCAAAATCATATTTTAACCCCTAAACTTTT
*
45480929 CAAAATTACATTTTGACCCCTCAAA
65 CAAAATTACATTTTAACCCCTCAAA
* * *
45480954 -TGTTTCCAAAATCACATTTTAATCCATAAACTTTTCCAAAATCATATTTTCGA-CCCTCAAACT
1 CT-TTTCCAAAATTACATTTTAA-CCCTAAACTTTTCCAAAATCATATTTT-AACCCCT-AAACT
* *
45481017 TCTTTAAAATTTCATTTT
62 T-TTCAAAATTACATTTT
45481035 CATCCCGAGT
Statistics
Matches: 145, Mismatches: 17, Indels: 16
0.81 0.10 0.09
Matches are distributed among these distances:
88 3 0.02
89 24 0.17
90 96 0.66
91 8 0.06
92 14 0.10
ACGTcount: A:0.34, C:0.23, G:0.02, T:0.41
Consensus pattern (89 bp):
CTTTTCCAAAATTACATTTTAACCCTAAACTTTTCCAAAATCATATTTTAACCCCTAAACTTTTC
AAAATTACATTTTAACCCCTCAAA
Found at i:45485262 original size:24 final size:24
Alignment explanation
Indices: 45485229--45485279 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
45485219 AGAAATAATC
* * *
45485229 TTTCAGTTAAATTTTATTTATTTG
1 TTTCAATTAAACTCTATTTATTTG
45485253 TTTCAATTAAACTCTATTTATTTG
1 TTTCAATTAAACTCTATTTATTTG
45485277 TTT
1 TTT
45485280 GAGTCAAACT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.08, G:0.06, T:0.61
Consensus pattern (24 bp):
TTTCAATTAAACTCTATTTATTTG
Found at i:45485288 original size:24 final size:24
Alignment explanation
Indices: 45485243--45485291 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
45485233 AGTTAAATTT
*
45485243 TATTTATTTGTTTCAATTAAACTC
1 TATTTATTTGTTTCAATCAAACTC
* *
45485267 TATTTATTTGTTTGAGTCAAACTC
1 TATTTATTTGTTTCAATCAAACTC
45485291 T
1 T
45485292 TATTACTCTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.27, C:0.12, G:0.08, T:0.53
Consensus pattern (24 bp):
TATTTATTTGTTTCAATCAAACTC
Found at i:45487251 original size:24 final size:24
Alignment explanation
Indices: 45487218--45487280 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
45487208 AGAAATAATC
* * *
45487218 TTTCAGTTAAATTTTGTTTATTTG
1 TTTCAATTAAACTCTGTTTATTTG
45487242 TTTCAATTAAACTCTGTTTATTTG
1 TTTCAATTAAACTCTGTTTATTTG
* *
45487266 TTTGAATCAAACTCT
1 TTTCAATTAAACTCT
45487281 TATTACTCTA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.25, C:0.11, G:0.10, T:0.54
Consensus pattern (24 bp):
TTTCAATTAAACTCTGTTTATTTG
Found at i:45489858 original size:30 final size:30
Alignment explanation
Indices: 45489819--45490094 Score: 278
Period size: 30 Copynumber: 9.2 Consensus size: 30
45489809 GGAAAAACAT
45489819 TTTTGGAAAAGTTTTGGGGTCAAAATGTAA
1 TTTTGGAAAAGTTTTGGGGTCAAAATGTAA
* *
45489849 TTATGGAAAAAAGTTTTTGGGTCAAAATGTAA
1 TTTTGG--AAAAGTTTTGGGGTCAAAATGTAA
*
45489881 -TGTGGAAAAG-TTTGGGGTC-AAATGTAA
1 TTTTGGAAAAGTTTTGGGGTCAAAATGTAA
* * ** *
45489908 TTGTGGAAAAGTTTAGGTTTTAAAATGTAA
1 TTTTGGAAAAGTTTTGGGGTCAAAATGTAA
* *
45489938 TTTTGGAAAA-TTTAGGGGTTAAAATGTAA
1 TTTTGGAAAAGTTTTGGGGTCAAAATGTAA
* * *
45489967 -TTTGGAAAAGTTTTAGGGTTAAAATATAA
1 TTTTGGAAAAGTTTTGGGGTCAAAATGTAA
* *
45489996 TTTTGGAAAAGTTTTAGGGTTTAAAATGTAA
1 TTTTGGAAAAGTTTT-GGGGTCAAAATGTAA
** **
45490027 -TTTGGAAAAG-TTTAAGGTCAAAAACATAA
1 TTTTGGAAAAGTTTTGGGGTC-AAAATGTAA
45490056 TTTTGGAAAAGTTTTGGGGTCACAAATGTAA
1 TTTTGGAAAAGTTTTGGGGTCA-AAATGTAA
45490087 TTTCTGGA
1 TTT-TGGA
45490095 CAATTTAGGG
Statistics
Matches: 206, Mismatches: 27, Indels: 24
0.80 0.11 0.09
Matches are distributed among these distances:
27 8 0.04
28 29 0.14
29 53 0.26
30 57 0.28
31 32 0.16
32 27 0.13
ACGTcount: A:0.37, C:0.03, G:0.24, T:0.36
Consensus pattern (30 bp):
TTTTGGAAAAGTTTTGGGGTCAAAATGTAA
Found at i:45489902 original size:60 final size:58
Alignment explanation
Indices: 45489773--45490089 Score: 309
Period size: 60 Copynumber: 5.3 Consensus size: 58
45489763 GGAAGTTTGG
* * ** * * *
45489773 GGGGTTAAAATTGTAATTTGGAAAAGTTTGGGGGAAGGAAAAACATTTTTGGAAAAGTTTT
1 GGGGTCAAAA-TGTAATTTGGAAAAGTTTAGGGTCA--AAATATAATTTTGGAAAAGTTTT
* * *
45489834 GGGGTCAAAATGTAATTATGGAAAAAAGTTTTTGGGTCAAAATGTAA-TGTGGAAAAG-TTT
1 GGGGTCAAAATGTAATT-TGG--AAAAG-TTTAGGGTCAAAATATAATTTTGGAAAAGTTTT
* * * *
45489894 GGGGTC-AAATGTAATTGTGGAAAAGTTTAGGTTTTAAAATGTAATTTTGGAAAA-TTTA
1 GGGGTCAAAATGTAATT-TGGAAAAGTTTAGG-GTCAAAATATAATTTTGGAAAAGTTTT
* *
45489952 GGGGTTAAAATGTAATTTGGAAAAGTTTTAGGGTTAAAATATAATTTTGGAAAAGTTTT
1 GGGGTCAAAATGTAATTTGGAAAAG-TTTAGGGTCAAAATATAATTTTGGAAAAGTTTT
* * * *
45490011 AGGGTTTAAAATGTAATTTGGAAAAGTTTAAGGTCAAAAACATAATTTTGGAAAAGTTTT
1 -GGGGTCAAAATGTAATTTGGAAAAGTTTAGGGTC-AAAATATAATTTTGGAAAAGTTTT
45490071 GGGGTCACAAATGTAATTT
1 GGGGTCA-AAATGTAATTT
45490090 CTGGACAATT
Statistics
Matches: 218, Mismatches: 25, Indels: 27
0.81 0.09 0.10
Matches are distributed among these distances:
56 5 0.02
57 15 0.07
58 43 0.20
59 44 0.20
60 74 0.34
61 21 0.10
62 4 0.02
63 5 0.02
64 7 0.03
ACGTcount: A:0.38, C:0.03, G:0.25, T:0.35
Consensus pattern (58 bp):
GGGGTCAAAATGTAATTTGGAAAAGTTTAGGGTCAAAATATAATTTTGGAAAAGTTTT
Found at i:45491308 original size:19 final size:19
Alignment explanation
Indices: 45491268--45491309 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
45491258 TATATATATT
*
45491268 ATAAATAATAATGACAATA
1 ATAAATAATAATGACAACA
*
45491287 ATAAATAATAATGATAACA
1 ATAAATAATAATGACAACA
45491306 ATAA
1 ATAA
45491310 GTATAAATAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.26
Consensus pattern (19 bp):
ATAAATAATAATGACAACA
Found at i:45491318 original size:22 final size:21
Alignment explanation
Indices: 45491267--45491318 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
45491257 TTATATATAT
*
45491267 TATAAATAATAATGACAATAA
1 TATAAATAATAATAACAATAA
* *
45491288 TAAATAATAATGATAACAATAA
1 TATA-AATAATAATAACAATAA
45491310 GTATAAATA
1 -TATAAATA
45491319 GAATAGGAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
21 3 0.12
22 19 0.76
23 3 0.12
ACGTcount: A:0.62, C:0.04, G:0.06, T:0.29
Consensus pattern (21 bp):
TATAAATAATAATAACAATAA
Found at i:45492372 original size:81 final size:75
Alignment explanation
Indices: 45492270--45493038 Score: 307
Period size: 68 Copynumber: 10.9 Consensus size: 75
45492260 TTTGTCTTGC
*
45492270 TCAATTTCGGAGATAAAGACTTGATACCCAATTATACTTC-ATTTCAAGCGGATAGGGATAGGAA
1 TCAATTTCGGAGATAAAGACTTGATACCCAACT-TACTTCAATTTCAA---G--A-GGATAGGAA
45492334 ATGATCTTGCTCTTACT
59 ATGATCTTGCTCTTACT
* * *
45492351 TCATTTTCGGAGATAAAGACTTGATATCCAGCTTACTTCAATTTCAAGAGGATAGGAAATGATCT
1 TCAATTTCGGAGATAAAGACTTGATACCCAACTTACTTCAATTTCAAGAGGATAGGAAATGATCT
45492416 TGCTCTTACT
66 TGCTCTTACT
* * * * *
45492426 TCAATTTCAGAGATAAAGACGTGTTATCC-ACTCTACTTCAATTTC-A-AGG---GG--ACGA-C
1 TCAATTTCGGAGATAAAGACTTGATACCCAACT-TACTTCAATTTCAAGAGGATAGGAAATGATC
45492482 GTTGCTCTTACT
65 -TTGCTCTTACT
** * * *
45492494 TCAATTTCAGAGAGATAAAGACGCGTTATCC-ACTCTACTTCAATTTCAAGGGGAT--G--A-GA
1 TCAATTTC-G-GAGATAAAGACTTGATACCCAACT-TACTTCAATTTCAAGAGGATAGGAAATGA
45492553 -CATTGCTCTTACT
63 TC-TTGCTCTTACT
* * * * *
45492566 TCAATTTCAGAGATGAAGACGTGTTATCC-ACTCTACTTCAATTTC-A-AGG---GG--ATGA-C
1 TCAATTTCGGAGATAAAGACTTGATACCCAACT-TACTTCAATTTCAAGAGGATAGGAAATGATC
45492622 GTTGCTCTTACT
65 -TTGCTCTTACT
* * * * *
45492634 TCAGTTTCAGAGATAAAGACTCGTTATCC-ACTCTACTTCAATTTC--GAGG---GG--ATGA-C
1 TCAATTTCGGAGATAAAGACTTGATACCCAACT-TACTTCAATTTCAAGAGGATAGGAAATGATC
45492690 ATTGCTCTTACT
65 -TTGCTCTTACT
* * * * * *
45492702 TCAATTTCAGAGATGAAGACGTGCTATCC-ACTCTACTTCAATTTC-A-AGG---GG--ACGA-C
1 TCAATTTCGGAGATAAAGACTTGATACCCAACT-TACTTCAATTTCAAGAGGATAGGAAATGATC
45492758 ATTGCTCTTACT
65 -TTGCTCTTACT
* * * * *
45492770 TCAATTTCAGAGATGAAGACGTGCTATCC-ACTCTACTTCAATTTC-A-AGG---GG--ATGA-C
1 TCAATTTCGGAGATAAAGACTTGATACCCAACT-TACTTCAATTTCAAGAGGATAGGAAATGATC
45492826 GTTGCTCTTACT
65 -TTGCTCTTACT
* * * * *
45492838 TCAATTTCAGAGATAAAGACTCGTTATCC-ACTCTACTTCAA-TT--A-AGG---GG--ATGATA
1 TCAATTTCGGAGATAAAGACTTGATACCCAACT-TACTTCAATTTCAAGAGGATAGGAAATGATC
45492893 TTGCTCTTACT
65 TTGCTCTTACT
* * * * * *
45492904 TCAATTTCAGAGATGAAGACGTGTTATCC-ACTCTACTTCAATTTC-A-AGG---GG--ACGA-C
1 TCAATTTCGGAGATAAAGACTTGATACCCAACT-TACTTCAATTTCAAGAGGATAGGAAATGATC
45492960 GTTGCTCTTACT
65 -TTGCTCTTACT
** * * * * ** *
45492972 TCAATTTTAGAGATAAAGACGTGTTAACCAGCTTTACTTC-ATTTCAATCGGATTGGAAATGATC
1 TCAATTTCGGAGATAAAGACTTGATACCCAAC-TTACTTCAATTTCAAGAGGATAGGAAATGATC
45493036 TTG
65 TTG
45493039 TTTGGTCTGA
Statistics
Matches: 613, Mismatches: 48, Indels: 60
0.85 0.07 0.08
Matches are distributed among these distances:
66 59 0.10
67 7 0.01
68 315 0.51
69 9 0.01
70 74 0.12
71 1 0.00
72 24 0.04
73 7 0.01
74 3 0.00
75 69 0.11
76 2 0.00
78 1 0.00
80 6 0.01
81 36 0.06
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (75 bp):
TCAATTTCGGAGATAAAGACTTGATACCCAACTTACTTCAATTTCAAGAGGATAGGAAATGATCT
TGCTCTTACT
Found at i:45492433 original size:38 final size:38
Alignment explanation
Indices: 45492325--45492434 Score: 109
Period size: 38 Copynumber: 2.9 Consensus size: 38
45492315 AAGCGGATAG
* *
45492325 GGATAGGAAATGATCTTGCTCTTACTTCATTTTC-GGA
1 GGATAGGAAATGATCTTGCTCTTACTTCAATTTCAAGA
* ** * * *
45492362 -GATAAAGACTTGAT-ATCCAGCTTACTTCAATTTCAAGA
1 GGAT-AGGAAATGATCTTGC-TCTTACTTCAATTTCAAGA
45492400 GGATAGGAAATGATCTTGCTCTTACTTCAATTTCA
1 GGATAGGAAATGATCTTGCTCTTACTTCAATTTCA
45492435 GAGATAAAGA
Statistics
Matches: 54, Mismatches: 14, Indels: 9
0.70 0.18 0.12
Matches are distributed among these distances:
36 5 0.09
37 20 0.37
38 24 0.44
39 5 0.09
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.35
Consensus pattern (38 bp):
GGATAGGAAATGATCTTGCTCTTACTTCAATTTCAAGA
Found at i:45492660 original size:68 final size:68
Alignment explanation
Indices: 45492415--45493018 Score: 930
Period size: 68 Copynumber: 8.9 Consensus size: 68
45492405 GGAAATGATC
*
45492415 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGACG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATG
*
45492480 ACG
66 ACA
*
45492483 TTGCTCTTACTTCAATTTCAGAGAGATAAAGACGCGTTATCCACTCTACTTCAATTTCAAGGGGA
1 TTGCTCTTACTTCAATTTC--AGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGA
45492548 TGAGACA
64 T--GACA
*
45492555 TTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATG
*
45492620 ACG
66 ACA
* *
45492623 TTGCTCTTACTTCAGTTTCAGAGATAAAGAC-TCGTTATCCACTCTACTTCAATTTCGAGGGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGT-GTTATCCACTCTACTTCAATTTCAAGGGGAT
45492687 GACA
65 GACA
* * *
45492691 TTGCTCTTACTTCAATTTCAGAGATGAAGACGTGCTATCCACTCTACTTCAATTTCAAGGGGACG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATG
45492756 ACA
66 ACA
* *
45492759 TTGCTCTTACTTCAATTTCAGAGATGAAGACGTGCTATCCACTCTACTTCAATTTCAAGGGGATG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATG
*
45492824 ACG
66 ACA
45492827 TTGCTCTTACTTCAATTTCAGAGATAAAGAC-TCGTTATCCACTCTACTTCAA-TT-AAGGGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGT-GTTATCCACTCTACTTCAATTTCAAGGGGAT
*
45492889 GATA
65 GACA
* *
45492893 TTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGACG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATG
*
45492958 ACG
66 ACA
* * *
45492961 TTGCTCTTACTTCAATTTTAGAGATAAAGACGTGTTAACCAGCTTTACTTC-ATTTCAA
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCA-CTCTACTTCAATTTCAA
45493019 TCGGATTGGA
Statistics
Matches: 496, Mismatches: 29, Indels: 22
0.91 0.05 0.04
Matches are distributed among these distances:
66 59 0.12
67 7 0.01
68 313 0.63
69 9 0.02
70 86 0.17
72 22 0.04
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.33
Consensus pattern (68 bp):
TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATG
ACA
Found at i:45492751 original size:136 final size:135
Alignment explanation
Indices: 45492340--45493018 Score: 929
Period size: 136 Copynumber: 4.9 Consensus size: 135
45492330 GGAAATGATC
* * *
45492340 TTGCTCTTACTTCATTTTCGGAGATAAAGACTTGATATCCAGCT-TACTTCAATTTCAAGAGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGAC-TGTTATCCA-CTCTACTTCAATTTC-A-AGG--
45492404 AGGAAATGATC-TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAAT
60 -GG--ATGA-CATTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAAT
*
45492468 TTCAAGGGGACGACG
121 TTCAAGGGGACGACA
*
45492483 TTGCTCTTACTTCAATTTCAGAGAGATAAAGACGCGTTATCCACTCTACTTCAATTTCAAGGGGA
1 TTGCTCTTACTTCAATTTC--AGAGATAAAGAC-TGTTATCCACTCTACTTCAATTTCAAGGGGA
*
45492548 TGAGACATTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAA
63 T--GACATTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAA
* *
45492613 GGGGATGACG
126 GGGGACGACA
* *
45492623 TTGCTCTTACTTCAGTTTCAGAGATAAAGACTCGTTATCCACTCTACTTCAATTTCGAGGGGATG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACT-GTTATCCACTCTACTTCAATTTCAAGGGGATG
* *
45492688 ACATTGCTCTTACTTCAATTTCAGAGATGAAGACGTGCTATCCACTCTACTTCAATTTCAAGGGG
65 ACATTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGG
45492753 ACGACA
130 ACGACA
* *
45492759 TTGCTCTTACTTCAATTTCAGAGATGAAGACGTGCTATCCACTCTACTTCAATTTCAAGGGGATG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGAC-TGTTATCCACTCTACTTCAATTTCAAGGGGATG
*
45492824 ACGTTGCTCTTACTTCAATTTCAGAGATAAAGAC-TCGTTATCCACTCTACTTCAA-TT-AAGGG
65 ACATTGCTCTTACTTCAATTTCAGAGATAAAGACGT-GTTATCCACTCTACTTCAATTTCAAGGG
* *
45492886 GATGATA
129 GACGACA
* *
45492893 TTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGACG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGAC-TGTTATCCACTCTACTTCAATTTCAAGGGGATG
* * * *
45492958 ACGTTGCTCTTACTTCAATTTTAGAGATAAAGACGTGTTAACCAGCTTTACTTC-ATTTCAA
65 ACATTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCA-CTCTACTTCAATTTCAA
45493019 TCGGATTGGA
Statistics
Matches: 496, Mismatches: 27, Indels: 33
0.89 0.05 0.06
Matches are distributed among these distances:
134 114 0.23
135 14 0.03
136 180 0.36
137 1 0.00
138 44 0.09
139 1 0.00
140 88 0.18
143 21 0.04
144 3 0.01
145 30 0.06
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.33
Consensus pattern (135 bp):
TTGCTCTTACTTCAATTTCAGAGATAAAGACTGTTATCCACTCTACTTCAATTTCAAGGGGATGA
CATTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGA
CGACA
Found at i:45492832 original size:204 final size:205
Alignment explanation
Indices: 45492340--45493018 Score: 1005
Period size: 204 Copynumber: 3.3 Consensus size: 205
45492330 GGAAATGATC
* * * *
45492340 TTGCTCTTACTTCATTTTCGGAGATAAAGACTTGATATCCAGCT-TACTTCAATTTCAAGAGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAGCTCTACTTCAATTTC-A-AGG--
45492404 AGGAAATGATC-TTGCTCTTACTTCAATTTCAGAGATAAAGACGT-GTTATCCACTCTACTTCAA
62 -GG--ATGA-CGTTGCTCTTACTTCAATTTCAGAGATAAAGAC-TCGTTATCCACTCTACTTCAA
* * * *
45492467 TTTCAAGGGGACGACGTTGCTCTTACTTCAATTTCAGAGAGATAAAGACGCGTTATCCACTCTAC
122 TTTCAAGGGGATGACATTGCTCTTACTTCAATTTC--AGAGATGAAGACGTGTTATCCACTCTAC
*
45492532 TTCAATTTCAAGGGGATGAGACA
185 TTCAATTTCAAGGGGA--CGACA
*
45492555 TTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCA-CTCTACTTCAATTTCAAGGGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAGCTCTACTTCAATTTCAAGGGGAT
* *
45492619 GACGTTGCTCTTACTTCAGTTTCAGAGATAAAGACTCGTTATCCACTCTACTTCAATTTCGAGGG
66 GACGTTGCTCTTACTTCAATTTCAGAGATAAAGACTCGTTATCCACTCTACTTCAATTTCAAGGG
*
45492684 GATGACATTGCTCTTACTTCAATTTCAGAGATGAAGACGTGCTATCCACTCTACTTCAATTTCAA
131 GATGACATTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAA
45492749 GGGGACGACA
196 GGGGACGACA
* *
45492759 TTGCTCTTACTTCAATTTCAGAGATGAAGACGTGCTATCCA-CTCTACTTCAATTTCAAGGGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAGCTCTACTTCAATTTCAAGGGGAT
45492823 GACGTTGCTCTTACTTCAATTTCAGAGATAAAGACTCGTTATCCACTCTACTTCAA-TT-AAGGG
66 GACGTTGCTCTTACTTCAATTTCAGAGATAAAGACTCGTTATCCACTCTACTTCAATTTCAAGGG
*
45492886 GATGATATTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAA
131 GATGACATTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAA
*
45492951 GGGGACGACG
196 GGGGACGACA
* * *
45492961 TTGCTCTTACTTCAATTTTAGAGATAAAGACGTGTTAACCAGCTTTACTTC-ATTTCAA
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAGCTCTACTTCAATTTCAA
45493019 TCGGATTGGA
Statistics
Matches: 436, Mismatches: 24, Indels: 21
0.91 0.05 0.04
Matches are distributed among these distances:
202 120 0.28
203 10 0.02
204 122 0.28
206 41 0.09
207 2 0.00
208 85 0.19
210 2 0.00
213 3 0.01
214 3 0.01
215 48 0.11
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.33
Consensus pattern (205 bp):
TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAGCTCTACTTCAATTTCAAGGGGAT
GACGTTGCTCTTACTTCAATTTCAGAGATAAAGACTCGTTATCCACTCTACTTCAATTTCAAGGG
GATGACATTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAA
GGGGACGACA
Found at i:45504835 original size:30 final size:30
Alignment explanation
Indices: 45504791--45505056 Score: 364
Period size: 29 Copynumber: 9.0 Consensus size: 30
45504781 AAATGGTTTA
45504791 AAAATGGT-ATTTTGGAAAAGTTTTGGGGTC
1 AAAAT-GTAATTTTGGAAAAGTTTTGGGGTC
**
45504821 AAAACATAATTTTGGAAAAGTTTTTGGGGTC
1 AAAATGTAATTTTGGAAAAG-TTTTGGGGTC
* *
45504852 AAAATGTAATTTTTGGACAA--TTCGGGGTC
1 AAAATGTAA-TTTTGGAAAAGTTTTGGGGTC
* *
45504881 AAAATGTAATTATAGAAAAG-TTTGGGGTC
1 AAAATGTAATTTTGGAAAAGTTTTGGGGTC
45504910 AAAATGTAATTTTGGAAAAGTTTTGGGGTC
1 AAAATGTAATTTTGGAAAAGTTTTGGGGTC
*
45504940 AAAATATAATTTTGGAAAAGTTTTGGGGTC
1 AAAATGTAATTTTGGAAAAGTTTTGGGGTC
* *
45504970 GAAATGTAA-TTTGGAAAAGTTTTGGGATC
1 AAAATGTAATTTTGGAAAAGTTTTGGGGTC
* *
45504999 GAAATGTAATTTTGG-AAAGTTTTAGGGTC
1 AAAATGTAATTTTGGAAAAGTTTTGGGGTC
45505028 AAAATGTAATTTTGGAAAAGTTTTGGGGT
1 AAAATGTAATTTTGGAAAAGTTTTGGGGT
45505057 TTTATTATTA
Statistics
Matches: 209, Mismatches: 20, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
28 7 0.03
29 98 0.47
30 78 0.37
31 17 0.08
32 9 0.04
ACGTcount: A:0.34, C:0.04, G:0.26, T:0.36
Consensus pattern (30 bp):
AAAATGTAATTTTGGAAAAGTTTTGGGGTC
Found at i:45506157 original size:21 final size:20
Alignment explanation
Indices: 45506124--45506171 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
45506114 TTTCTTTATT
*
45506124 TATT-TTATTATTACTAAAA
1 TATTATTATCATTACTAAAA
* *
45506143 TATTTATTATCATTATTATAA
1 TA-TTATTATCATTACTAAAA
45506164 TATTATTA
1 TATTATTA
45506172 ATAATAATGA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 2 0.08
20 8 0.33
21 14 0.58
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (20 bp):
TATTATTATCATTACTAAAA
Found at i:45506299 original size:19 final size:18
Alignment explanation
Indices: 45506260--45506306 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 18
45506250 TATTATAATT
*
45506260 ATAAATATAATGACAATA
1 ATAAATATAATGACAACA
*
45506278 ATAAATAATAATGATAACA
1 ATAAAT-ATAATGACAACA
*
45506297 ATAAGTATAA
1 ATAAATATAA
45506307 ATAGAATAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 10 0.40
19 15 0.60
ACGTcount: A:0.62, C:0.04, G:0.06, T:0.28
Consensus pattern (18 bp):
ATAAATATAATGACAACA
Found at i:45514759 original size:13 final size:13
Alignment explanation
Indices: 45514741--45514768 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
45514731 ATTTTAGCTT
45514741 TTTGAACATTGTA
1 TTTGAACATTGTA
45514754 TTTGAACATTGTA
1 TTTGAACATTGTA
45514767 TT
1 TT
45514769 ACAGATTAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.07, G:0.14, T:0.50
Consensus pattern (13 bp):
TTTGAACATTGTA
Found at i:45521091 original size:41 final size:41
Alignment explanation
Indices: 45520975--45521296 Score: 363
Period size: 41 Copynumber: 7.9 Consensus size: 41
45520965 GTTTGGAAAC
* * * *
45520975 AAAGCGCCGCAAAAGGTAAAG-CATTAGCGGCGCTT--CAT
1 AAAGCGCCGCTAAAGGTCAGGTCATTAGCGGCGCTTACCCT
*
45521013 CACAAGCGCCGCTAAAGGTCA-GTCATTAGTGGCGCTTACCCT
1 -A-AAGCGCCGCTAAAGGTCAGGTCATTAGCGGCGCTTACCCT
*
45521055 AAAGCGCCGCTAAAGGTCAGGTCATTAGCGACGCTTACCCT
1 AAAGCGCCGCTAAAGGTCAGGTCATTAGCGGCGCTTACCCT
*
45521096 AAAGCGCCACTAAAGGTC-GAGTCATTAGCGGCGCTTACCCT
1 AAAGCGCCGCTAAAGGTCAG-GTCATTAGCGGCGCTTACCCT
* *
45521137 AAAGCGCCGCTAAAGGTC-GAGTCATTAGCGGCGCTTTCCTT
1 AAAGCGCCGCTAAAGGTCAG-GTCATTAGCGGCGCTTACCCT
* * * * *
45521178 CAAGCGCCGCTAAAGGTCGGGTCATTAGCAGCGCTTTCCTT
1 AAAGCGCCGCTAAAGGTCAGGTCATTAGCGGCGCTTACCCT
* * * *
45521219 CAAGCGCCGCTAAAGGTCGGGTCATTAGCAGCGCTT--TCT
1 AAAGCGCCGCTAAAGGTCAGGTCATTAGCGGCGCTTACCCT
*
45521258 AATAAGCGCCACTAAAGGTCAGGTCATTAGCGGCGCTTA
1 -A-AAGCGCCGCTAAAGGTCAGGTCATTAGCGGCGCTTA
45521297 TTAGAAAAGC
Statistics
Matches: 254, Mismatches: 19, Indels: 17
0.88 0.07 0.06
Matches are distributed among these distances:
39 3 0.01
40 48 0.19
41 200 0.79
42 3 0.01
ACGTcount: A:0.25, C:0.28, G:0.26, T:0.21
Consensus pattern (41 bp):
AAAGCGCCGCTAAAGGTCAGGTCATTAGCGGCGCTTACCCT
Found at i:45521384 original size:13 final size:13
Alignment explanation
Indices: 45521366--45521398 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
45521356 CACAACCTGC
45521366 TTCCCTCACTCCA
1 TTCCCTCACTCCA
*
45521379 TTCCCTCACTCCG
1 TTCCCTCACTCCA
45521392 TTCCCTC
1 TTCCCTC
45521399 TTCATGCGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.09, C:0.55, G:0.03, T:0.33
Consensus pattern (13 bp):
TTCCCTCACTCCA
Found at i:45523957 original size:112 final size:112
Alignment explanation
Indices: 45523785--45524593 Score: 1207
Period size: 112 Copynumber: 7.3 Consensus size: 112
45523775 AATAATTAAA
* * *
45523785 TAATTATATATTTAATTATAAACAGTATCAATTAATTAAAAATTTAATTTGAATGATTTAATTAT
1 TAATTATGTATTTAATTATAAACAGTATCAATTAATTAAAAATTTAATTTAAAAGATTTAATTAT
45523850 TTAATTATATTAAAGTAAATAATTATATTAAATTATTTAATTATGTT
66 TTAATTATATTAAAGTAAATAATTATATTAAATTATTTAATTATGTT
45523897 TAATTATGTATTTAATTATAAACAGTATCAATTAATTAAAAATTTAATTTAAAAGATTTAATTAT
1 TAATTATGTATTTAATTATAAACAGTATCAATTAATTAAAAATTTAATTTAAAAGATTTAATTAT
45523962 TTAATTATATTAAAGTAAATAATTATATTAAATTATTTAATTATGTT
66 TTAATTATATTAAAGTAAATAATTATATTAAATTATTTAATTATGTT
* * ** *
45524009 TAATTATGTATTTAATTATAAATAGTATCAATTAATTAAATAA-TTAAGTCGAAATATTTAATTA
1 TAATTATGTATTTAATTATAAACAGTATCAATTAATTAAA-AATTTAATTTAAAAGATTTAATTA
* *
45524073 TTTAATTGTATTAAACTAAATAATTATA-TAAATTATTTAATTATGTT
65 TTTAATTATATTAAAGTAAATAATTATATTAAATTATTTAATTATGTT
*
45524120 TAATTATGTATTTAATTGTAAACAGTAT--ATTAATTAAATAA--TAATTT--AA-A---AA-TA
1 TAATTATGTATTTAATTATAAACAGTATCAATTAATTAAA-AATTTAATTTAAAAGATTTAATTA
* * *
45524174 TTTAATTACATTAAACTAAACAATTATATTAAATTATTTAATTATGTT
65 TTTAATTATATTAAAGTAAATAATTATATTAAATTATTTAATTATGTT
* * * *
45524222 TAATTATGTATTTAATTATAAACAGTACCAATTACTTAAATATTTAATTTAATAGATTTAATTAT
1 TAATTATGTATTTAATTATAAACAGTATCAATTAATTAAAAATTTAATTTAAAAGATTTAATTAT
* *
45524287 TTAATTATATTAAAGTAAATAATTATATTAAATCAATTAATTATGTT
66 TTAATTATATTAAAGTAAATAATTATATTAAATTATTTAATTATGTT
* * * *
45524334 TAATTATGTATTTAATTGTAAACAGTATCAATTAATTAAATATTTAATTTAAAATAATTAATTAT
1 TAATTATGTATTTAATTATAAACAGTATCAATTAATTAAAAATTTAATTTAAAAGATTTAATTAT
*
45524399 TT-ATTATATTAAAGTAAATAACTATATTAAATTATTTAATTATGTT
66 TTAATTATATTAAAGTAAATAATTATATTAAATTATTTAATTATGTT
* * * *
45524445 TAATTATATATTTAATTGTAAACAGTATCAATTAATTAAATATTTAATTTAAAATATTTAATTAT
1 TAATTATGTATTTAATTATAAACAGTATCAATTAATTAAAAATTTAATTTAAAAGATTTAATTAT
*
45524510 TTAATTATATTAAAGTAAATAACTATATTAAATTATTTAATTATG-T
66 TTAATTATATTAAAGTAAATAATTATATTAAATTATTTAATTATGTT
* *
45524556 TAATTATGTATTTAATTGTAAACAATATCAATTAATTA
1 TAATTATGTATTTAATTATAAACAGTATCAATTAATTA
45524594 TTTACTTATA
Statistics
Matches: 643, Mismatches: 40, Indels: 29
0.90 0.06 0.04
Matches are distributed among these distances:
101 27 0.04
102 47 0.07
103 1 0.00
104 9 0.01
105 7 0.01
106 2 0.00
107 1 0.00
108 5 0.01
109 13 0.02
111 190 0.30
112 339 0.53
113 2 0.00
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (112 bp):
TAATTATGTATTTAATTATAAACAGTATCAATTAATTAAAAATTTAATTTAAAAGATTTAATTAT
TTAATTATATTAAAGTAAATAATTATATTAAATTATTTAATTATGTT
Found at i:45524375 original size:325 final size:330
Alignment explanation
Indices: 45523785--45524593 Score: 1220
Period size: 325 Copynumber: 2.4 Consensus size: 330
45523775 AATAATTAAA
* *
45523785 TAATTATATATTTAATTATAAACAGTATCAATTAATTAAA-AATTTAATTTGAATGATTTAATTA
1 TAATTATATATTTAATTGTAAACAGTAT-AATTAATTAAATAA--TAATTT-AA--ATATAATTA
45523849 TTTAATTATATTAAAGTAAATAATTATATTAAATTATTTAATTATGTTTAATTATGTATTTAATT
60 TTTAATTATATTAAAGTAAATAATTATATTAAATTATTTAATTATGTTTAATTATGTATTTAATT
45523914 ATAAACAGTATCAATTAATTAAAAATTTAATTTAAAAGATTTAATTATTTAATTATATTAAAGTA
125 ATAAACAGTATCAATTAATTAAAAATTTAATTTAAAAGATTTAATTATTTAATTATATTAAAGTA
* * *
45523979 AATAATTATATTAAATTATTTAATTATGTTTAATTATGTATTTAATTATAAATAGTATCAATTAA
190 AATAATTATATTAAATCAATTAATTATGTTTAATTATGTATTTAATTATAAACAGTATCAATTAA
* * * *
45524044 TTAAATAATTAAGTCGAAATATTTAATTATTTAATTGTATTAAACTAAATAATTATA-TAAATTA
255 TTAAATAATTAAGTCAAAATAATTAATTATTT-ATTATATTAAACTAAATAACTATATTAAATTA
45524108 TTTAATTATGTT
319 TTTAATTATGTT
*
45524120 TAATTATGTATTTAATTGTAAACAGTAT-ATTAATTAAATAATAATTT-AA-A-AA-TATTTAAT
1 TAATTATATATTTAATTGTAAACAGTATAATTAATTAAATAATAATTTAAATATAATTATTTAAT
* * *
45524180 TACATTAAACTAAACAATTATATTAAATTATTTAATTATGTTTAATTATGTATTTAATTATAAAC
66 TATATTAAAGTAAATAATTATATTAAATTATTTAATTATGTTTAATTATGTATTTAATTATAAAC
* * * *
45524245 AGTACCAATTACTTAAATATTTAATTTAATAGATTTAATTATTTAATTATATTAAAGTAAATAAT
131 AGTATCAATTAATTAAAAATTTAATTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAAT
*
45524310 TATATTAAATCAATTAATTATGTTTAATTATGTATTTAATTGTAAACAGTATCAATTAATTAAAT
196 TATATTAAATCAATTAATTATGTTTAATTATGTATTTAATTATAAACAGTATCAATTAATTAAAT
* * * *
45524375 ATTTAATTTAAAATAATTAATTATTTATTATATTAAAGTAAATAACTATATTAAATTATTTAATT
261 AATTAAGTCAAAATAATTAATTATTTATTATATTAAACTAAATAACTATATTAAATTATTTAATT
45524440 ATGTT
326 ATGTT
*
45524445 TAATTATATATTTAATTGTAAACAGTATCAATTAATTAAATATTTAATTTAAAATATTTAATTAT
1 TAATTATATATTTAATTGTAAACAGTAT-AATTAATTAAATA-ATAATTT-AAATA--TAATTAT
* *
45524510 TTAATTATATTAAAGTAAATAACTATATTAAATTATTTAATTATG-TTAATTATGTATTTAATTG
61 TTAATTATATTAAAGTAAATAATTATATTAAATTATTTAATTATGTTTAATTATGTATTTAATTA
*
45524574 TAAACAATATCAATTAATTA
126 TAAACAGTATCAATTAATTA
45524594 TTTACTTATA
Statistics
Matches: 430, Mismatches: 32, Indels: 25
0.88 0.07 0.05
Matches are distributed among these distances:
324 21 0.05
325 259 0.60
326 2 0.00
327 12 0.03
328 7 0.02
330 3 0.01
331 1 0.00
332 6 0.01
333 10 0.02
334 39 0.09
335 70 0.16
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (330 bp):
TAATTATATATTTAATTGTAAACAGTATAATTAATTAAATAATAATTTAAATATAATTATTTAAT
TATATTAAAGTAAATAATTATATTAAATTATTTAATTATGTTTAATTATGTATTTAATTATAAAC
AGTATCAATTAATTAAAAATTTAATTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAAT
TATATTAAATCAATTAATTATGTTTAATTATGTATTTAATTATAAACAGTATCAATTAATTAAAT
AATTAAGTCAAAATAATTAATTATTTATTATATTAAACTAAATAACTATATTAAATTATTTAATT
ATGTT
Found at i:45524618 original size:12 final size:14
Alignment explanation
Indices: 45524601--45524632 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
45524591 TTATTTACTT
45524601 ATATTTAA-TT-AA
1 ATATTTAATTTAAA
45524613 ATATTTAATTTAAA
1 ATATTTAATTTAAA
45524627 ATATTT
1 ATATTT
45524633 TCGTAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 8 0.44
13 2 0.11
14 8 0.44
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
ATATTTAATTTAAA
Found at i:45524632 original size:14 final size:12
Alignment explanation
Indices: 45524365--45524508 Score: 52
Period size: 12 Copynumber: 11.6 Consensus size: 12
45524355 ACAGTATCAA
45524365 TTAATTAAATAT
1 TTAATTAAATAT
45524377 TTAATTTAAA-A-
1 TTAA-TTAAATAT
*
45524388 -TAATTAATTAT
1 TTAATTAAATAT
45524399 TT-ATT--ATAT
1 TTAATTAAATAT
* * *
45524408 TAAAGTAAATAA
1 TTAATTAAATAT
*
45524420 CTATATTAAATTAT
1 TTA-ATTAAA-TAT
*
45524434 TTAATT--ATGT
1 TTAATTAAATAT
*
45524444 TTAATTATATAT
1 TTAATTAAATAT
45524456 TTAATTGTAAACAGTAT
1 TTAA-T-T-AA-A-TAT
45524473 CAATTAATTAAATAT
1 ---TTAATTAAATAT
45524488 TTAATTTAAAATAT
1 TTAA-TT-AAATAT
45524502 TTAATTA
1 TTAATTA
45524509 TTTAATTATA
Statistics
Matches: 98, Mismatches: 13, Indels: 42
0.64 0.08 0.27
Matches are distributed among these distances:
9 8 0.08
10 14 0.14
11 4 0.04
12 22 0.22
13 18 0.18
14 15 0.15
15 4 0.04
16 2 0.02
17 5 0.05
18 1 0.01
19 1 0.01
20 4 0.04
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.49
Consensus pattern (12 bp):
TTAATTAAATAT
Found at i:45524670 original size:4 final size:4
Alignment explanation
Indices: 45524640--45524699 Score: 52
Period size: 4 Copynumber: 15.0 Consensus size: 4
45524630 TTTTCGTAAA
* * *
45524640 TAAT TATAT ATAAT TATT TAAT T--T TAAT TAAT TATT TAAT TATT TAAT
1 TAAT TA-AT -TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT
*
45524688 TATT TAAT TAAT
1 TAAT TAAT TAAT
45524700 AAAAACAACC
Statistics
Matches: 44, Mismatches: 8, Indels: 8
0.73 0.13 0.13
Matches are distributed among these distances:
2 2 0.05
4 36 0.82
5 4 0.09
6 2 0.05
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (4 bp):
TAAT
Found at i:45524672 original size:28 final size:28
Alignment explanation
Indices: 45524640--45524699 Score: 88
Period size: 28 Copynumber: 2.1 Consensus size: 28
45524630 TTTTCGTAAA
45524640 TAATTATATATAATTATTTAA-T-TTTAAT
1 TAATTAT-T-TAATTATTTAATTATTTAAT
45524668 TAATTATTTAATTATTTAATTATTTAAT
1 TAATTATTTAATTATTTAATTATTTAAT
45524696 TAAT
1 TAAT
45524700 AAAAACAACC
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
26 11 0.37
27 2 0.07
28 17 0.57
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (28 bp):
TAATTATTTAATTATTTAATTATTTAAT
Found at i:45524674 original size:223 final size:221
Alignment explanation
Indices: 45523785--45524662 Score: 1224
Period size: 223 Copynumber: 4.0 Consensus size: 221
45523775 AATAATTAAA
* *
45523785 TAATTATATATTTAATTATAAACAGTATCAATTAATTAAAAATTTAATTT-GAATGATTTAATTA
1 TAATTATATATTTAATTATAAACAGTATCAATTAATTAAATATTTAATTTAAAAT-ATTTAATTA
45523849 TTTAATTATATTAAAGTAAATAATTATATTAAATTATTTAATTATGTTTAATTATGTATTTAATT
65 TTTAATTATATTAAAGTAAATAATTATATTAAATTATTTAATTATGTTTAATTATGTATTTAATT
* * *
45523914 ATAAACAGTATCAATTAATTAAAAATTTAATTTAAAAGAT-TTAATTATTTAATTATATTAAAGT
130 GTAAACAGTATCAATTAATTAAATATTTAATTTAAAA-ATATT--TAATTTAA-TATATTAAAGT
45523978 AAATAATTATATTAAATTATTTAATTATGTT
191 AAATAATTATATTAAATTATTTAATTATGTT
* * * * **
45524009 TAATTATGTATTTAATTATAAATAGTATCAATTAATTAAATAATTAAGTCGAAATATTTAATTAT
1 TAATTATATATTTAATTATAAACAGTATCAATTAATTAAATATTTAATTTAAAATATTTAATTAT
* *
45524074 TTAATTGTATTAAACTAAATAATTATA-TAAATTATTTAATTATGTTTAATTATGTATTTAATTG
66 TTAATTATATTAAAGTAAATAATTATATTAAATTATTTAATTATGTTTAATTATGTATTTAATTG
* * * *
45524138 TAAACAGTAT--ATTAATTAAATA-ATAATTTAAAAATATTTAA--T--TACATTAAACTAAACA
131 TAAACAGTATCAATTAATTAAATATTTAATTTAAAAATATTTAATTTAATATATTAAAGTAAATA
45524196 ATTATATTAAATTATTTAATTATGTT
196 ATTATATTAAATTATTTAATTATGTT
* * * * *
45524222 TAATTATGTATTTAATTATAAACAGTACCAATTACTTAAATATTTAATTTAATAGATTTAATTAT
1 TAATTATATATTTAATTATAAACAGTATCAATTAATTAAATATTTAATTTAAAATATTTAATTAT
* *
45524287 TTAATTATATTAAAGTAAATAATTATATTAAATCAATTAATTATGTTTAATTATGTATTTAATTG
66 TTAATTATATTAAAGTAAATAATTATATTAAATTATTTAATTATGTTTAATTATGTATTTAATTG
* *
45524352 TAAACAGTATCAATTAATTAAATATTTAATTT-AAAATAATTAATTATTTATTATATTAAAGTAA
131 TAAACAGTATCAATTAATTAAATATTTAATTTAAAAAT-ATT--TAATTTAATATATTAAAGTAA
*
45524416 ATAACTATATTAAATTATTTAATTATGTT
193 ATAATTATATTAAATTATTTAATTATGTT
*
45524445 TAATTATATATTTAATTGTAAACAGTATCAATTAATTAAATATTTAATTTAAAATATTTAATTAT
1 TAATTATATATTTAATTATAAACAGTATCAATTAATTAAATATTTAATTTAAAATATTTAATTAT
*
45524510 TTAATTATATTAAAGTAAATAACTATATTAAATTATTTAATTATG-TTAATTATGTATTTAATTG
66 TTAATTATATTAAAGTAAATAATTATATTAAATTATTTAATTATGTTTAATTATGTATTTAATTG
* ** * * ***
45524574 TAAACAATATCAATTAATTATTTACTTATATTTAATTAAATATTTAATTTAAAATATTTTCGTAA
131 TAAACAGTATCAATTAATTAAATATTTA-ATTTAA--AAATATTTAATTTAATATATTAAAGTAA
45524639 ATAATTATA-TATAATTATTTAATT
193 ATAATTATATTA-AATTATTTAATT
45524663 TTAATTAATT
Statistics
Matches: 581, Mismatches: 55, Indels: 37
0.86 0.08 0.05
Matches are distributed among these distances:
213 120 0.21
214 45 0.08
216 18 0.03
217 9 0.02
218 2 0.00
219 4 0.01
220 12 0.02
221 12 0.02
222 45 0.08
223 224 0.39
224 80 0.14
225 6 0.01
226 4 0.01
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.47
Consensus pattern (221 bp):
TAATTATATATTTAATTATAAACAGTATCAATTAATTAAATATTTAATTTAAAATATTTAATTAT
TTAATTATATTAAAGTAAATAATTATATTAAATTATTTAATTATGTTTAATTATGTATTTAATTG
TAAACAGTATCAATTAATTAAATATTTAATTTAAAAATATTTAATTTAATATATTAAAGTAAATA
ATTATATTAAATTATTTAATTATGTT
Found at i:45524678 original size:8 final size:8
Alignment explanation
Indices: 45524640--45524697 Score: 71
Period size: 8 Copynumber: 6.8 Consensus size: 8
45524630 TTTTCGTAAA
45524640 TAATTATAT
1 TAATTAT-T
45524649 ATAATTATT
1 -TAATTATT
*
45524658 TAATTTTAAT
1 TAA--TTATT
45524668 TAATTATT
1 TAATTATT
45524676 TAATTATT
1 TAATTATT
45524684 TAATTATT
1 TAATTATT
45524692 TAATTA
1 TAATTA
45524698 ATAAAAACAA
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
8 29 0.66
9 1 0.02
10 14 0.32
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (8 bp):
TAATTATT
Found at i:45524775 original size:31 final size:33
Alignment explanation
Indices: 45524719--45524785 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
45524709 CAAAATATTT
45524719 AAGTAAAATGTTGTCACTAATATATATATTTTA
1 AAGTAAAATGTTGTCACTAATATATATATTTTA
45524752 AAGTAAAATGTTGTCACTAATATATAT-TTTTA
1 AAGTAAAATGTTGTCACTAATATATATATTTTA
45524784 AA
1 AA
45524786 TTTAAATCAA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 7 0.21
33 27 0.79
ACGTcount: A:0.43, C:0.06, G:0.09, T:0.42
Consensus pattern (33 bp):
AAGTAAAATGTTGTCACTAATATATATATTTTA
Found at i:45530334 original size:66 final size:66
Alignment explanation
Indices: 45530228--45530368 Score: 228
Period size: 66 Copynumber: 2.1 Consensus size: 66
45530218 CAAATTGCTC
* * *
45530228 AACTTAAAGAGGAGGCTGCAGCGAGAGAAGCAGAGGCTCAAAAAAAATATGATGAACTCCATCTA
1 AACTTAAAGAGGAGGCTGCAGCGAGAGAAGCAGAAGCTCAAAAAAAATATGAAGAACTCCACCTA
45530293 A
66 A
* *
45530294 AACTTAAAGAGGAGGCTGCAGTGAGAGAAGCAGAATCTCAAAAAAAATATGAAGAACTCCACCTA
1 AACTTAAAGAGGAGGCTGCAGCGAGAGAAGCAGAAGCTCAAAAAAAATATGAAGAACTCCACCTA
*
45530359 C
66 A
45530360 AACTTAAAG
1 AACTTAAAG
45530369 TGGACAAAAG
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
66 69 1.00
ACGTcount: A:0.45, C:0.17, G:0.22, T:0.16
Consensus pattern (66 bp):
AACTTAAAGAGGAGGCTGCAGCGAGAGAAGCAGAAGCTCAAAAAAAATATGAAGAACTCCACCTA
A
Found at i:45530392 original size:66 final size:66
Alignment explanation
Indices: 45530245--45530385 Score: 174
Period size: 66 Copynumber: 2.1 Consensus size: 66
45530235 AGAGGAGGCT
* * * ***
45530245 GCAGCGAGAGAAGCAGAGGCTCAAAAAAAATATGATGAACTCCATCTAAAACTTAAAGAGGAGGC
1 GCAGCGAGAGAAGCAGAAGCTCAAAAAAAATATGAAGAACTCCACCTAAAACTTAAAGAGGAAAA
*
45530310 T
66 A
* * * *
45530311 GCAGTGAGAGAAGCAGAATCTCAAAAAAAATATGAAGAACTCCACCTACAACTTAAAGTGGACAA
1 GCAGCGAGAGAAGCAGAAGCTCAAAAAAAATATGAAGAACTCCACCTAAAACTTAAAGAGGA-AA
45530376 AA
65 AA
45530378 GCAGCGAG
1 GCAGCGAG
45530386 GCAGCAGCGA
Statistics
Matches: 62, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
66 55 0.89
67 7 0.11
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.14
Consensus pattern (66 bp):
GCAGCGAGAGAAGCAGAAGCTCAAAAAAAATATGAAGAACTCCACCTAAAACTTAAAGAGGAAAA
A
Found at i:45530633 original size:15 final size:15
Alignment explanation
Indices: 45530613--45530641 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
45530603 ATTTGAAGTT
45530613 ATTGGTTGGATTTGC
1 ATTGGTTGGATTTGC
45530628 ATTGGTTGGATTTG
1 ATTGGTTGGATTTG
45530642 AATTTTCAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.03, G:0.34, T:0.48
Consensus pattern (15 bp):
ATTGGTTGGATTTGC
Found at i:45530775 original size:43 final size:42
Alignment explanation
Indices: 45530714--45530955 Score: 333
Period size: 43 Copynumber: 5.6 Consensus size: 42
45530704 TGTTATATTA
*
45530714 GCGGCACTTGTGGAGAAAGCGCCGCTAAAGAACATGGTCTTTC
1 GCGGCGCTTGTGGA-AAAGCGCCGCTAAAGAACATGGTCTTTC
45530757 GCGGCGCTTGTGGAGAAAGCGCCGCTAAAGAACATGGTCTTTC
1 GCGGCGCTTGTGGA-AAAGCGCCGCTAAAGAACATGGTCTTTC
** *
45530800 GCGGCGCTTGTGGAAAATGCGCCGCTAAAGAACATGACCTTTA
1 GCGGCGCTTGTGGAAAA-GCGCCGCTAAAGAACATGGTCTTTC
*
45530843 GCGGCGCTTGTGGAAAAGCGCCGCTAAAGAACATGAT-TTTC
1 GCGGCGCTTGTGGAAAAGCGCCGCTAAAGAACATGGTCTTTC
* *
45530884 GCGGCGCTTGTGGAAAAAGCGCGTCGCTAAAGAACATGGCCTTTA
1 GCGGCGCTTGTGG-AAAAGCGC--CGCTAAAGAACATGGTCTTTC
* *
45530929 GCGGCACTTGTGGTAAAAGCGCTGCTA
1 GCGGCGCTTGTGG-AAAAGCGCCGCTA
45530956 TTTTTTTACG
Statistics
Matches: 182, Mismatches: 12, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
41 16 0.09
42 30 0.16
43 99 0.54
44 14 0.08
45 23 0.13
ACGTcount: A:0.26, C:0.23, G:0.31, T:0.21
Consensus pattern (42 bp):
GCGGCGCTTGTGGAAAAGCGCCGCTAAAGAACATGGTCTTTC
Found at i:45530941 original size:129 final size:129
Alignment explanation
Indices: 45530711--45530955 Score: 379
Period size: 129 Copynumber: 1.9 Consensus size: 129
45530701 ATCTGTTATA
* *
45530711 TTAGCGGCACTTGTGGAGAAAGCGCCGCTAAAGAACATGGTCTTTCGCGGCGCTTGTGGAGAAAG
1 TTAGCGGCACTTGTGGAGAAAGCGCCGCTAAAGAACATGATCTTTCGCGGCGCTTGTGGAAAAAG
* * *
45530776 CGCCGCTAAAGAACATGGTCTTTCGCGGCGCTTGTGG-AAAATGCGCCGCTAAAGAACATGACCT
66 CGCCGCTAAAGAACATGGCCTTTAGCGGCACTTGTGGTAAAA-GCGCCGCTAAAGAACATGACCT
*
45530840 TTAGCGGCGCTTGTGGA-AAAGCGCCGCTAAAGAACATGAT-TTTCGCGGCGCTTGTGGAAAAAG
1 TTAGCGGCACTTGTGGAGAAAGCGCCGCTAAAGAACATGATCTTTCGCGGCGCTTGTGGAAAAAG
*
45530903 CGCGTCGCTAAAGAACATGGCCTTTAGCGGCACTTGTGGTAAAAGCGCTGCTA
66 CGC--CGCTAAAGAACATGGCCTTTAGCGGCACTTGTGGTAAAAGCGCCGCTA
45530956 TTTTTTTACG
Statistics
Matches: 106, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
127 25 0.24
128 22 0.21
129 55 0.52
130 4 0.04
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (129 bp):
TTAGCGGCACTTGTGGAGAAAGCGCCGCTAAAGAACATGATCTTTCGCGGCGCTTGTGGAAAAAG
CGCCGCTAAAGAACATGGCCTTTAGCGGCACTTGTGGTAAAAGCGCCGCTAAAGAACATGACCT
Found at i:45533590 original size:14 final size:14
Alignment explanation
Indices: 45533573--45533603 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
45533563 TAGGTTAAAA
45533573 AAATTTAATTAATT
1 AAATTTAATTAATT
*
45533587 AAATTTATTTAATT
1 AAATTTAATTAATT
45533601 AAA
1 AAA
45533604 AATCTATTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
AAATTTAATTAATT
Found at i:45537920 original size:19 final size:20
Alignment explanation
Indices: 45537876--45537922 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
45537866 ACACCAGCAT
*
45537876 GCATCGAGCATCATCAGGAT
1 GCATCGAGCATCATCAGGAA
*
45537896 GCATCGAGCAT-ATGAGGAA
1 GCATCGAGCATCATCAGGAA
*
45537915 GTATCGAG
1 GCATCGAG
45537923 TAGAACTAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 13 0.54
20 11 0.46
ACGTcount: A:0.32, C:0.19, G:0.30, T:0.19
Consensus pattern (20 bp):
GCATCGAGCATCATCAGGAA
Found at i:45542964 original size:66 final size:65
Alignment explanation
Indices: 45542858--45542991 Score: 259
Period size: 66 Copynumber: 2.0 Consensus size: 65
45542848 CATGCTGACT
45542858 CACAACCTTTCCACTTCTTTGAAGTTCCCTAAGTTTTCTTATACTGGTGCAGGTGACCTAGAGGA
1 CACAACCTTTCCACTTCTTTGAAGTTCCCTAAGTTTTCTTATACTGGTGCAGGTGACCTAGAGG-
45542923 C
65 C
45542924 CACAACCTTTCCACTTCTTTGAAGTTCCCTAAGTTTTCTTATACTGGTGCAGGTGACCTAGAGGC
1 CACAACCTTTCCACTTCTTTGAAGTTCCCTAAGTTTTCTTATACTGGTGCAGGTGACCTAGAGGC
45542989 CAC
1 CAC
45542992 TTAGCTCATT
Statistics
Matches: 68, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
65 4 0.06
66 64 0.94
ACGTcount: A:0.22, C:0.27, G:0.18, T:0.33
Consensus pattern (65 bp):
CACAACCTTTCCACTTCTTTGAAGTTCCCTAAGTTTTCTTATACTGGTGCAGGTGACCTAGAGGC
Found at i:45545188 original size:20 final size:18
Alignment explanation
Indices: 45545148--45545184 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
45545138 AATATCGTAT
45545148 TTTATTTTTAAACATATA
1 TTTATTTTTAAACATATA
*
45545166 TTTATATTTTAAATATATA
1 TTTAT-TTTTAAACATATA
45545185 ATTTTTACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTATTTTTAAACATATA
Found at i:45546387 original size:82 final size:82
Alignment explanation
Indices: 45546260--45546426 Score: 228
Period size: 82 Copynumber: 2.0 Consensus size: 82
45546250 GTTAGGTGAA
* *
45546260 TAGATTTAACCTAAAGGGATCATGAATATTCAATGACGATAACACACATATGACAAATTCATTGG
1 TAGATTTAACCTAAAGAGATCATGAATATCCAATGACGATAACACACATATGACAAATTCATTGG
45546325 ATAAAAGTTTAATTAAG
66 ATAAAAGTTTAATTAAG
* * * * * * *
45546342 TAGATTTAACCTAAAGAGATCAT-AATTATCCTATGAGGGTAACACATATATTACAAGTTTATTG
1 TAGATTTAACCTAAAGAGATCATGAA-TATCCAATGACGATAACACACATATGACAAATTCATTG
*
45546406 GATAAAATTTTAATTAAG
65 GATAAAAGTTTAATTAAG
45546424 TAG
1 TAG
45546427 CTTTTGTCAA
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
81 2 0.03
82 72 0.97
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (82 bp):
TAGATTTAACCTAAAGAGATCATGAATATCCAATGACGATAACACACATATGACAAATTCATTGG
ATAAAAGTTTAATTAAG
Found at i:45548207 original size:29 final size:29
Alignment explanation
Indices: 45548175--45548321 Score: 161
Period size: 30 Copynumber: 5.0 Consensus size: 29
45548165 TGGACATCCG
*
45548175 GGGGT-AAAATGGTAATCTTTGGAAGTTTC
1 GGGGTCAAAATGG-AATTTTTGGAAGTTTC
* *
45548204 GGGGTCAAAAATGAAATTTTTGAAAGTTTC
1 GGGGTC-AAAATGGAATTTTTGGAAGTTTC
* *
45548234 GGGGTCAAAATGGAATCTTTGGAAGTTTA
1 GGGGTCAAAATGGAATTTTTGGAAGTTTC
* * *
45548263 GAGGTCAAAAATGGAATTTTTGGAAATTTT
1 GGGGTC-AAAATGGAATTTTTGGAAGTTTC
* *
45548293 AGGGTCAAAATGTAATTTTTGGACAGTTT
1 GGGGTCAAAATGGAATTTTTGGA-AGTTT
45548322 AAGGACCTTT
Statistics
Matches: 99, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
29 45 0.45
30 48 0.48
31 6 0.06
ACGTcount: A:0.33, C:0.06, G:0.27, T:0.35
Consensus pattern (29 bp):
GGGGTCAAAATGGAATTTTTGGAAGTTTC
Found at i:45548225 original size:59 final size:59
Alignment explanation
Indices: 45548117--45548288 Score: 190
Period size: 59 Copynumber: 2.9 Consensus size: 59
45548107 TAGGCATTTA
* * ** * * *
45548117 GGGGTAAAATGGTAATTTTTAGAA-AATCGAGATCAAAAATGGGATTTTTGGACA-TCC
1 GGGGTAAAATGGTAATCTTTGGAAGTTTCGAGGTCAAAAATGGAATTTTTGGAAAGTCC
* * *
45548174 GGGGGTAAAATGGTAATCTTTGGAAGTTTCGGGGTCAAAAATGAAATTTTT-GAAAGTTTC
1 -GGGGTAAAATGGTAATCTTTGGAAGTTTCGAGGTCAAAAATGGAATTTTTGGAAAG-TCC
*
45548234 GGGGTCAAAATGG-AATCTTTGGAAGTTTAGAGGTCAAAAATGGAATTTTTGGAAA
1 GGGGT-AAAATGGTAATCTTTGGAAGTTTCGAGGTCAAAAATGGAATTTTTGGAAA
45548289 TTTTAGGGTC
Statistics
Matches: 96, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
58 25 0.26
59 58 0.60
60 13 0.14
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.31
Consensus pattern (59 bp):
GGGGTAAAATGGTAATCTTTGGAAGTTTCGAGGTCAAAAATGGAATTTTTGGAAAGTCC
Found at i:45548298 original size:59 final size:59
Alignment explanation
Indices: 45548149--45548322 Score: 201
Period size: 59 Copynumber: 2.9 Consensus size: 59
45548139 AAAATCGAGA
* * * * *
45548149 TCAAAAATGGGATTTTTGGACA-TCCGGGGGT-AAAATGGTAATCTTTGGAAGTTTCGGGG
1 TCAAAAATGGAATTTTTGGAAATTTC-GGGGTCAAAATGG-AATCTTTGGAAGTTTAGAGG
*
45548208 TCAAAAATGAAATTTTT-GAAAGTTTCGGGGTCAAAATGGAATCTTTGGAAGTTTAGAGG
1 TCAAAAATGGAATTTTTGGAAA-TTTCGGGGTCAAAATGGAATCTTTGGAAGTTTAGAGG
** * *
45548267 TCAAAAATGGAATTTTTGGAAATTTTAGGGTCAAAATGTAATTTTTGGACAGTTTA
1 TCAAAAATGGAATTTTTGGAAATTTCGGGGTCAAAATGGAATCTTTGGA-AGTTTA
45548323 AGGACCTTTA
Statistics
Matches: 99, Mismatches: 11, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
58 3 0.03
59 77 0.78
60 19 0.19
ACGTcount: A:0.33, C:0.07, G:0.26, T:0.34
Consensus pattern (59 bp):
TCAAAAATGGAATTTTTGGAAATTTCGGGGTCAAAATGGAATCTTTGGAAGTTTAGAGG
Found at i:45548322 original size:29 final size:28
Alignment explanation
Indices: 45548176--45548322 Score: 143
Period size: 29 Copynumber: 5.0 Consensus size: 28
45548166 GGACATCCGG
* *
45548176 GGGT-AAAATGGTAATCTTTGGAAGTTTCG
1 GGGTCAAAATGG-AATTTTTGGAAGTTT-A
* * *
45548205 GGGTCAAAAATGAAATTTTTGAAAGTTTCG
1 GGGTC-AAAATGGAATTTTTGGAAGTTT-A
*
45548235 GGGTCAAAATGGAATCTTTGGAAGTTTA
1 GGGTCAAAATGGAATTTTTGGAAGTTTA
*
45548263 GAGGTCAAAAATGGAATTTTTGGAAATTTTA
1 G-GGTC-AAAATGGAATTTTTGG-AAGTTTA
*
45548294 GGGTCAAAATGTAATTTTTGGACAGTTTA
1 GGGTCAAAATGGAATTTTTGGA-AGTTTA
45548323 AGGACCTTTA
Statistics
Matches: 101, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
28 2 0.02
29 47 0.47
30 39 0.39
31 13 0.13
ACGTcount: A:0.33, C:0.06, G:0.26, T:0.35
Consensus pattern (28 bp):
GGGTCAAAATGGAATTTTTGGAAGTTTA
Found at i:45548726 original size:6 final size:6
Alignment explanation
Indices: 45548717--45548805 Score: 57
Period size: 6 Copynumber: 15.5 Consensus size: 6
45548707 TTTTAATATT
* **
45548717 AATTTA AATTTT AA-TTA AATTTA AATTTA AA-GCA AA-TTA AATTTAAA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTT--A
* *
45548764 AATTTA AATTTA AA-AT- AATTT- AATTTA ACA-ATA AATTTA AAT
1 AATTTA AATTTA AATTTA AATTTA AATTTA A-ATTTA AATTTA AAT
45548806 CTATTCAAAC
Statistics
Matches: 65, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
4 2 0.03
5 18 0.28
6 38 0.58
7 1 0.02
8 6 0.09
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (6 bp):
AATTTA
Found at i:45548739 original size:17 final size:17
Alignment explanation
Indices: 45548717--45548805 Score: 91
Period size: 17 Copynumber: 5.5 Consensus size: 17
45548707 TTTTAATATT
* *
45548717 AATTTAAATTTTAATTA
1 AATTTAAATTTAAAATA
**
45548734 AATTTAAATTTAAAGCA
1 AATTTAAATTTAAAATA
45548751 AA-TTAAATTT--AA-A
1 AATTTAAATTTAAAATA
45548764 AATTTAAATTTAAAAT-
1 AATTTAAATTTAAAATA
45548780 AATTT-AATTTAACAATA
1 AATTTAAATTTAA-AATA
45548797 AATTTAAAT
1 AATTTAAAT
45548806 CTATTCAAAC
Statistics
Matches: 61, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
13 3 0.05
14 9 0.15
15 7 0.11
16 18 0.30
17 21 0.34
18 3 0.05
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (17 bp):
AATTTAAATTTAAAATA
Found at i:45548745 original size:16 final size:14
Alignment explanation
Indices: 45548717--45548804 Score: 74
Period size: 16 Copynumber: 6.0 Consensus size: 14
45548707 TTTTAATATT
45548717 AATTTAAATTTTAATTA
1 AATTTAAA-TTTAA--A
45548734 AATTTAAATTTAAA
1 AATTTAAATTTAAA
*
45548748 GCAAATTAAATTTAAA
1 --AATTTAAATTTAAA
45548764 AATTTAAATTTAAAA
1 AATTTAAATTT-AAA
*
45548779 TAATTT-AATTTAAC
1 -AATTTAAATTTAAA
45548793 AA--TAAATTTAAA
1 AATTTAAATTTAAA
45548805 TCTATTCAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 15
0.77 0.05 0.19
Matches are distributed among these distances:
11 1 0.02
12 7 0.11
13 2 0.03
14 13 0.21
15 8 0.13
16 23 0.37
17 8 0.13
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (14 bp):
AATTTAAATTTAAA
Found at i:45549455 original size:206 final size:203
Alignment explanation
Indices: 45549096--45549940 Score: 1107
Period size: 206 Copynumber: 4.2 Consensus size: 203
45549086 TCTGGTTTTA
* * ** *
45549096 TTGACTTGGTCTTCTTCTCAGTGTCTCATCAGGAAGATGACCGCATCACTTGTTTTGATCCACTT
1 TTGA-TTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCGCTT
* * * * * * * * *
45549161 CTCTGTGTTTCATCAAGAAGACGGATTTGGTTCACTTTTCTGTATCTCATGAGGAAGCTAACCAC
65 CTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCAT
* * * *
45549226 TTTATTTCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTTCTCACAT
130 TTTATTGCTTCAACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACAT
45549291 CGAGCGTGGG
195 CGAGCGT-GG
* * *
45549301 TTTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGATCGCATCATTTGTTTCAATCCGCT
1 -TTGA-TTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCGCT
*
45549366 TCTCTGTATCTCATCAGGAAGACAAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCA
64 TCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCA
* * * *
45549431 TTTTATTGCTTCGACCTGCTTCTCAGTGTCTGATCAGGAAGCTGGGGTTCGAAGATTCGCTCGCA
129 TTTTATTGCTTCAACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACA
*
45549496 TTGAGC---G
194 TCGAGCGTGG
* * * *
45549503 TTGAGTTGGTATACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCACTTGTTTCAATTCGCTT
1 TTGA-TTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCGCTT
* *
45549568 CTCTGTATCTCATCATGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACATA
65 CTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAAC-CA
*
45549633 TTTTATTGCTTCAACCTGCTTCTCAGTGTCTCATCAGGAAGCT-GGGTTCGAAGATTTGCTCATA
129 TTTTATTGCTTCAACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACA
*
45549697 TCGAGTGTGG
194 TCGAGCGTGG
* * *
45549707 --G-TTGG-CATACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCACTTGTTTCAATTCGCTT
1 TTGATTGGTC-TACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCGCTT
* * * *
45549768 CTCTGTATCTCATTAGGAAGACGAATTTGGTCCGCTTCTCAGTATCTCATCAAGAAGCTGACCAT
65 CTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCAT
* * *
45549833 TTTATTGTTTCAACTTGCTTCTCAGTGTCTCATCAGGAAGCTAGGGTTCGAAGATTTGCTCACAT
130 TTTATTGCTTCAACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACAT
*
45549898 CGAGCGTCG
195 CGAGCGTGG
* * * *
45549907 -AG-TTGGTATACTTCTCTGTATGTCATCAGGAAGA
1 TTGATTGGTCTACTTCTCAGTATCTCATCAGGAAGA
45549941 CAATCGCCTC
Statistics
Matches: 575, Mismatches: 56, Indels: 21
0.88 0.09 0.03
Matches are distributed among these distances:
199 42 0.07
200 143 0.25
201 169 0.29
202 44 0.08
204 1 0.00
206 176 0.31
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (203 bp):
TTGATTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCGCTTC
TCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATT
TTATTGCTTCAACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACATC
GAGCGTGG
Found at i:45549606 original size:201 final size:201
Alignment explanation
Indices: 45549109--45549940 Score: 1155
Period size: 201 Copynumber: 4.1 Consensus size: 201
45549099 ACTTGGTCTT
* * ** * * *
45549109 CTTCTCAGTGTCTCATCAGGAAGATGACCGCATCACTTGTTTTGATCCACTTCTCTGTGTTTCAT
1 CTTCTCTGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCGCTTCTCTGTATCTCAT
* * * * * * * * *
45549174 CAAGAAGACGGATTTGGTTCACTTTTCTGTATCTCATGAGGAAGCTAACCACTTTATTTCTTCGA
66 CAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCAA
* *
45549239 CCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTTCTCACATCGAGCGTGGGTTT
131 CCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACATCGAGC----G-TT
* * *
45549304 GATTTGGTCTT
191 GAGTTGGTATA
* * *
45549315 CTTCTCAGTATCTCATCAGGAAGATGATCGCATCATTTGTTTCAATCCGCTTCTCTGTATCTCAT
1 CTTCTCTGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCGCTTCTCTGTATCTCAT
* *
45549380 CAGGAAGACAAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGA
66 CAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCAA
* * * *
45549445 CCTGCTTCTCAGTGTCTGATCAGGAAGCTGGGGTTCGAAGATTCGCTCGCATTGAGCGTTGAGTT
131 CCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACATCGAGCGTTGAGTT
45549510 GGTATA
196 GGTATA
* *
45549516 CTTCTCTGTATCTCATCAGGAAGATGACCGCCTCACTTGTTTCAATTCGCTTCTCTGTATCTCAT
1 CTTCTCTGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCGCTTCTCTGTATCTCAT
* *
45549581 CATGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACATATTTTATTGCTTCA
66 CAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAAC-CATTTTATTGCTTCA
* * *
45549646 ACCTGCTTCTCAGTGTCTCATCAGGAAGCT-GGGTTCGAAGATTTGCTCATATCGAGTG-TGGGT
130 ACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACATCGAGCGTTGAGT
*
45549709 TGGCATA
195 TGGTATA
* *
45549716 CTTCTCTGTATCTCATCAGGAAGATGACCGCCTCACTTGTTTCAATTCGCTTCTCTGTATCTCAT
1 CTTCTCTGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCGCTTCTCTGTATCTCAT
* * * * *
45549781 TAGGAAGACGAATTTGGTCCGCTTCTCAGTATCTCATCAAGAAGCTGACCATTTTATTGTTTCAA
66 CAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCAA
* * *
45549846 CTTGCTTCTCAGTGTCTCATCAGGAAGCTAGGGTTCGAAGATTTGCTCACATCGAGCGTCGAGTT
131 CCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACATCGAGCGTTGAGTT
45549911 GGTATA
196 GGTATA
*
45549917 CTTCTCTGTATGTCATCAGGAAGA
1 CTTCTCTGTATCTCATCAGGAAGA
45549941 CAATCGCCTC
Statistics
Matches: 566, Mismatches: 57, Indels: 11
0.89 0.09 0.02
Matches are distributed among these distances:
199 42 0.07
200 145 0.26
201 172 0.30
202 43 0.08
206 164 0.29
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (201 bp):
CTTCTCTGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCGCTTCTCTGTATCTCAT
CAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCAA
CCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACATCGAGCGTTGAGTT
GGTATA
Found at i:45549864 original size:85 final size:86
Alignment explanation
Indices: 45549716--45549872 Score: 201
Period size: 85 Copynumber: 1.8 Consensus size: 86
45549706 GGTTGGCATA
* * * *
45549716 CTTCTCTGTATCTCATCAGGAAGATGACCGCCTCACTTGTTTCAATTCGCTTCTCTGTATCTCAT
1 CTTCTCAGTATCTCATCAAGAAGATGACCACCTCACTTGTTTCAATTCGCTTCTCAGTATCTCAT
*
45549781 TAGGAAGACGAATTTGGTCCG
66 CAGGAAGACGAATTTGGTCCG
* ** * *
45549802 CTTCTCAGTATCTCATCAAGAAGCTGACCATTTTA-TTGTTTCAACTT-GCTTCTCAGTGTCTCA
1 CTTCTCAGTATCTCATCAAGAAGATGACCACCTCACTTGTTTCAA-TTCGCTTCTCAGTATCTCA
45549865 TCAGGAAG
65 TCAGGAAG
45549873 CTAGGGTTCG
Statistics
Matches: 60, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
85 30 0.50
86 30 0.50
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (86 bp):
CTTCTCAGTATCTCATCAAGAAGATGACCACCTCACTTGTTTCAATTCGCTTCTCAGTATCTCAT
CAGGAAGACGAATTTGGTCCG
Found at i:45549870 original size:401 final size:404
Alignment explanation
Indices: 45549109--45549940 Score: 1188
Period size: 401 Copynumber: 2.1 Consensus size: 404
45549099 ACTTGGTCTT
* * ** * *
45549109 CTTCTCAGTGTCTCATCAGGAAGATGACCGCATCACTTGTTTTGATCCACTTCTCTGTGTTTCAT
1 CTTCTCTGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCACTTCTCTGTATCTCAT
* * * * * * *
45549174 CAAGAAGACGGATTTGGTTCACTTTTCTGTATCTCATGAGGAAGCTAACCACTTTATTTCTTCGA
66 CAAGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCACTTTATTGCTTCAA
*
45549239 CCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTTCTCACATCGAGCGTGGGTTT
131 CCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACATCGAGCGTGGG--T
* * *
45549304 GATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGATCGCATCATTTGTTTCAATCCGCTTCT
194 GA-TTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCGCTTCT
*
45549369 CTGTATCTCATCAGGAAGACAAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTT
258 CTGTATCTCATCAGGAAGACAAATTTGGTCCACTTCTCAGTATCTCATCAAGAAGCTAACCATTT
* * * * *
45549434 TATTGCTTCGACCTGCTTCTCAGTGTCTGATCAGGAAGCTGGGGTTCGAAGATTCGCTCGCATTG
323 TATTGCTTCAACCTGCTTCTCAGTGTCTCATCAGGAAGCTAGGGTTCGAAGATTCGCTCACATCG
*
45549499 AGCGTTGAGTTGGTATA
388 AGCGTCGAGTTGGTATA
* * *
45549516 CTTCTCTGTATCTCATCAGGAAGATGACCGCCTCACTTGTTTCAATTCGCTTCTCTGTATCTCAT
1 CTTCTCTGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCACTTCTCTGTATCTCAT
* * *
45549581 CATGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACATATTTTATTGCTTCA
66 CAAGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAAC-CACTTTATTGCTTCA
* * *
45549646 ACCTGCTTCTCAGTGTCTCATCAGGAAGCT-GGGTTCGAAGATTTGCTCATATCGAGTGT-GG-G
130 ACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACATCGAGCGTGGGTG
* * *
45549708 -TTGG-CATACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCACTTGTTTCAATTCGCTTCTC
195 ATTGGTC-TACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCGCTTCTC
* * * *
45549771 TGTATCTCATTAGGAAGACGAATTTGGTCCGCTTCTCAGTATCTCATCAAGAAGCTGACCATTTT
259 TGTATCTCATCAGGAAGACAAATTTGGTCCACTTCTCAGTATCTCATCAAGAAGCTAACCATTTT
* * *
45549836 ATTGTTTCAACTTGCTTCTCAGTGTCTCATCAGGAAGCTAGGGTTCGAAGATTTGCTCACATCGA
324 ATTGCTTCAACCTGCTTCTCAGTGTCTCATCAGGAAGCTAGGGTTCGAAGATTCGCTCACATCGA
45549901 GCGTCGAGTTGGTATA
389 GCGTCGAGTTGGTATA
*
45549917 CTTCTCTGTATGTCATCAGGAAGA
1 CTTCTCTGTATCTCATCAGGAAGA
45549941 CAATCGCCTC
Statistics
Matches: 379, Mismatches: 44, Indels: 10
0.88 0.10 0.02
Matches are distributed among these distances:
400 1 0.00
401 210 0.55
403 1 0.00
406 2 0.01
407 125 0.33
408 40 0.11
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (404 bp):
CTTCTCTGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCACTTCTCTGTATCTCAT
CAAGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCACTTTATTGCTTCAA
CCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACATCGAGCGTGGGTGA
TTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCGCTTCTCTG
TATCTCATCAGGAAGACAAATTTGGTCCACTTCTCAGTATCTCATCAAGAAGCTAACCATTTTAT
TGCTTCAACCTGCTTCTCAGTGTCTCATCAGGAAGCTAGGGTTCGAAGATTCGCTCACATCGAGC
GTCGAGTTGGTATA
Found at i:45550637 original size:32 final size:31
Alignment explanation
Indices: 45550577--45550637 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 31
45550567 CTTTCCCTTC
*
45550577 TGTATCTTTGCGGTACTGGATCTACCGTTTT
1 TGTATCTTTGCGGTACTGGATCCACCGTTTT
* *
45550608 TGTATCTTGTGTGGTACTGGATCCGCCGTT
1 TGTATCTT-TGCGGTACTGGATCCACCGTT
45550638 ACGGTCTTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 8 0.31
32 18 0.69
ACGTcount: A:0.11, C:0.20, G:0.26, T:0.43
Consensus pattern (31 bp):
TGTATCTTTGCGGTACTGGATCCACCGTTTT
Done.