Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 347 of 378
Found at i:104571172 original size:13 final size:14
Alignment explanation
Indices: 104571148--104571178 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
104571138 ATCATTATTA
104571148 ATATTAATATATGT
1 ATATTAATATATGT
104571162 ATATT-ATATATGT
1 ATATTAATATATGT
104571175 ATAT
1 ATAT
104571179 ATTCATACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (14 bp):
ATATTAATATATGT
Found at i:104571400 original size:12 final size:12
Alignment explanation
Indices: 104571379--104571517 Score: 71
Period size: 12 Copynumber: 11.4 Consensus size: 12
104571369 TTCTTAATAT
104571379 TATATT-TTATA
1 TATATTATTATA
104571390 TATATTATTATA
1 TATATTATTATA
104571402 TATATT-TTA-A
1 TATATTATTATA
104571412 TATCATTAGTTATA
1 TAT-ATTA-TTATA
* * *
104571426 T-TTTTCTTTTA
1 TATATTATTATA
104571437 TACTATTA-TATA
1 TA-TATTATTATA
104571449 TATATATATATATA
1 TATAT-TAT-TATA
* *
104571463 TCTAATATTATAA
1 TATATTATTAT-A
104571476 GGTATATT-TCTA-A
1 --TATATTAT-TATA
104571489 TACTATTATT-TA
1 TA-TATTATTATA
104571501 TATATATATT-TA
1 TATAT-TATTATA
104571513 TATAT
1 TATAT
104571518 GTGTGTACGT
Statistics
Matches: 100, Mismatches: 10, Indels: 35
0.69 0.07 0.24
Matches are distributed among these distances:
10 4 0.04
11 25 0.25
12 42 0.42
13 13 0.13
14 10 0.10
15 6 0.06
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.56
Consensus pattern (12 bp):
TATATTATTATA
Found at i:104577455 original size:24 final size:24
Alignment explanation
Indices: 104577428--104577499 Score: 79
Period size: 24 Copynumber: 3.3 Consensus size: 24
104577418 AATGAATTAA
104577428 TGAATGAATAGAGTTTAATTTGTT
1 TGAATGAATAGAGTTTAATTTGTT
*
104577452 TGAATGAA-ATA-TTTAA------
1 TGAATGAATAGAGTTTAATTTGTT
104577468 TGAATGAATAGAGTTTAATTTGTT
1 TGAATGAATAGAGTTTAATTTGTT
104577492 TGAATGAA
1 TGAATGAA
104577500 ATATTATGGA
Statistics
Matches: 38, Mismatches: 2, Indels: 16
0.68 0.04 0.29
Matches are distributed among these distances:
16 8 0.21
17 2 0.05
18 5 0.13
22 5 0.13
23 2 0.05
24 16 0.42
ACGTcount: A:0.39, C:0.00, G:0.19, T:0.42
Consensus pattern (24 bp):
TGAATGAATAGAGTTTAATTTGTT
Found at i:104577476 original size:40 final size:40
Alignment explanation
Indices: 104577414--104577504 Score: 164
Period size: 40 Copynumber: 2.2 Consensus size: 40
104577404 ATAAGGCATT
*
104577414 ATGAAATGAATTAATGAATGAATAGAGTTTAATTTGTTTGA
1 ATGAAAT-ATTTAATGAATGAATAGAGTTTAATTTGTTTGA
104577455 ATGAAATATTTAATGAATGAATAGAGTTTAATTTGTTTGA
1 ATGAAATATTTAATGAATGAATAGAGTTTAATTTGTTTGA
104577495 ATGAAATATT
1 ATGAAATATT
104577505 ATGGAAATAT
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
40 42 0.86
41 7 0.14
ACGTcount: A:0.42, C:0.00, G:0.18, T:0.41
Consensus pattern (40 bp):
ATGAAATATTTAATGAATGAATAGAGTTTAATTTGTTTGA
Found at i:104577486 original size:18 final size:18
Alignment explanation
Indices: 104577424--104577486 Score: 54
Period size: 20 Copynumber: 3.3 Consensus size: 18
104577414 ATGAAATGAA
104577424 TTAATGAATGAATAGAGT
1 TTAATGAATGAATAGAGT
** * *
104577442 TTAATTTGTTTGAATGAAATAT
1 TTAA--TGAATGAAT-AGA-GT
104577464 TTAATGAATGAATAGAGT
1 TTAATGAATGAATAGAGT
104577482 TTAAT
1 TTAAT
104577487 TTGTTTGAAT
Statistics
Matches: 33, Mismatches: 8, Indels: 8
0.67 0.16 0.16
Matches are distributed among these distances:
18 10 0.30
19 2 0.06
20 14 0.42
21 2 0.06
22 5 0.15
ACGTcount: A:0.41, C:0.00, G:0.17, T:0.41
Consensus pattern (18 bp):
TTAATGAATGAATAGAGT
Found at i:104577495 original size:20 final size:20
Alignment explanation
Indices: 104577432--104577496 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
104577422 AATTAATGAA
104577432 TGAATAGAGTTTAATTTGTT
1 TGAATAGAGTTTAATTTGTT
* * **
104577452 TGAATGAAATATTTAA--TGAA
1 TGAAT-AGA-GTTTAATTTGTT
104577472 TGAATAGAGTTTAATTTGTT
1 TGAATAGAGTTTAATTTGTT
104577492 TGAAT
1 TGAAT
104577497 GAAATATTAT
Statistics
Matches: 33, Mismatches: 8, Indels: 8
0.67 0.16 0.16
Matches are distributed among these distances:
18 5 0.15
19 2 0.06
20 19 0.58
21 2 0.06
22 5 0.15
ACGTcount: A:0.37, C:0.00, G:0.18, T:0.45
Consensus pattern (20 bp):
TGAATAGAGTTTAATTTGTT
Found at i:104577817 original size:75 final size:75
Alignment explanation
Indices: 104577664--104577821 Score: 203
Period size: 75 Copynumber: 2.1 Consensus size: 75
104577654 GTACATCCAG
* * *
104577664 CTAGTGCTGGGCACACCATTATATTTGTCGGTTTATCCGACTAGCGTTAGCCGTAACCTTTGGCA
1 CTAGTGCTGGGCACACCATTATATTTGTCGATTTACCCGACTAGCGTTAGCCGCAACCTTTGGCA
* *
104577729 GTTTAGAGAA
66 GATTACAGAA
* * *
104577739 CTAGTGTTGGGCACACCATTATATTTGTCGATTTACCCGACTAGCGTTGAG-CGCAACTTTTGTC
1 CTAGTGCTGGGCACACCATTATATTTGTCGATTTACCCGACTAGCGTT-AGCCGCAACCTTTGGC
*
104577803 AGATTATCTG-A
65 AGATTA-CAGAA
104577814 CTAGTGCT
1 CTAGTGCT
104577822 AAGTACACTT
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
75 68 0.96
76 3 0.04
ACGTcount: A:0.22, C:0.22, G:0.23, T:0.34
Consensus pattern (75 bp):
CTAGTGCTGGGCACACCATTATATTTGTCGATTTACCCGACTAGCGTTAGCCGCAACCTTTGGCA
GATTACAGAA
Found at i:104591561 original size:4 final size:4
Alignment explanation
Indices: 104591547--104591625 Score: 54
Period size: 4 Copynumber: 19.0 Consensus size: 4
104591537 ATAAGTAAAT
* * *
104591547 GAAA TAAA GAAA GAAA GAAA GCAA -AAC GAAGGA GAAA GGAAA GAAA GAAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAA--A GAAA -GAAA GAAA G-AAA
* *
104591598 TAAA AAAA GGAAA GAAA GAAA G-AA GAAA
1 GAAA GAAA -GAAA GAAA GAAA GAAA GAAA
104591626 CGCACAACCT
Statistics
Matches: 59, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
3 4 0.07
4 42 0.71
5 10 0.17
6 3 0.05
ACGTcount: A:0.71, C:0.03, G:0.24, T:0.03
Consensus pattern (4 bp):
GAAA
Found at i:104591614 original size:26 final size:28
Alignment explanation
Indices: 104591552--104591621 Score: 81
Period size: 30 Copynumber: 2.5 Consensus size: 28
104591542 TAAATGAAAT
* *
104591552 AAAGAAAGAAAGAAAGCAAAACGAAGGAG
1 AAAGAAAGAAAGAAAACAAAAC-AAAGAG
*
104591581 AAAGGAAAGAAAGAAAATAAAA-AAAG-G
1 AAA-GAAAGAAAGAAAACAAAACAAAGAG
104591608 AAAGAAAGAAAGAA
1 AAAGAAAGAAAGAA
104591622 GAAACGCACA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
26 11 0.30
27 4 0.11
28 3 0.08
29 3 0.08
30 16 0.43
ACGTcount: A:0.71, C:0.03, G:0.24, T:0.01
Consensus pattern (28 bp):
AAAGAAAGAAAGAAAACAAAACAAAGAG
Found at i:104593531 original size:30 final size:32
Alignment explanation
Indices: 104593474--104593536 Score: 94
Period size: 30 Copynumber: 2.0 Consensus size: 32
104593464 GACATGCCAT
104593474 CCACACGGGCAAGGCCAAATTTGGGCATGTGGG
1 CCACACGGGCAAGGCCAAA-TTGGGCATGTGGG
*
104593507 CCACACGGGCAA-GCCACA-TGGGCATGTGGG
1 CCACACGGGCAAGGCCAAATTGGGCATGTGGG
104593537 GCCATTTAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 12 0.41
32 5 0.17
33 12 0.41
ACGTcount: A:0.24, C:0.27, G:0.37, T:0.13
Consensus pattern (32 bp):
CCACACGGGCAAGGCCAAATTGGGCATGTGGG
Found at i:104595951 original size:3 final size:3
Alignment explanation
Indices: 104595943--104596090 Score: 97
Period size: 3 Copynumber: 48.0 Consensus size: 3
104595933 AGGTGTAAAT
* * * *
104595943 ATA ATA ATA ATA ATA AT- ATA TTG ATA ATAA ACA ATA ATA A-A AGGA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA A-TA
* * * * * *
104595988 ATA AAA ATA ATA GTA ATA ATA AGA ATGT TTA ATA ATA GTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA
*
104596034 ACA ATA AT- ATAA ATA ATA ATA ATA TATA CATGA ATA ATA ATA ATA AT-
1 ATA ATA ATA AT-A ATA ATA ATA ATA -ATA -AT-A ATA ATA ATA ATA ATA
104596081 ATAA ATA ATA
1 AT-A ATA ATA
104596091 GAAAAAATAA
Statistics
Matches: 112, Mismatches: 22, Indels: 22
0.72 0.14 0.14
Matches are distributed among these distances:
2 8 0.07
3 87 0.78
4 16 0.14
5 1 0.01
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:104600070 original size:49 final size:48
Alignment explanation
Indices: 104599996--104600130 Score: 153
Period size: 49 Copynumber: 2.8 Consensus size: 48
104599986 CATTCGGCCT
* * * *
104599996 AGCAACGCCATTATATGGCCTAACATTCTGGCCTGCACCATTAGGTCT
1 AGCAAGGCCATCATATGGCCCAACATTCTGGCCTGCACCATTAGGTCG
* * * * *
104600044 AGCAGGGTCATCCATATGGCCCAACATTCAGGCCTACACCATTTGGTCG
1 AGCAAGGCCAT-CATATGGCCCAACATTCTGGCCTGCACCATTAGGTCG
* * *
104600093 AGCAAGGCCATCATATGGCCCAAAATTTTTGCCTGCAC
1 AGCAAGGCCATCATATGGCCCAACATTCTGGCCTGCAC
104600131 TGTTACCCAT
Statistics
Matches: 70, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
48 30 0.43
49 40 0.57
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (48 bp):
AGCAAGGCCATCATATGGCCCAACATTCTGGCCTGCACCATTAGGTCG
Found at i:104606036 original size:26 final size:26
Alignment explanation
Indices: 104605987--104606060 Score: 96
Period size: 26 Copynumber: 2.9 Consensus size: 26
104605977 TTTGTCACCC
* *
104605987 CAATTTTACCTC-AATAAAAATTTGA
1 CAATTTTACCCCTAATAAAATTTTGA
104606012 CAATTTTACCCCTAATAAAATTTTGA
1 CAATTTTACCCCTAATAAAATTTTGA
* * *
104606038 CGATTTTACCCTTGATAAAATTT
1 CAATTTTACCCCTAATAAAATTT
104606061 CGAGAAAATT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
25 11 0.26
26 32 0.74
ACGTcount: A:0.38, C:0.18, G:0.05, T:0.39
Consensus pattern (26 bp):
CAATTTTACCCCTAATAAAATTTTGA
Found at i:104609885 original size:13 final size:14
Alignment explanation
Indices: 104609869--104609897 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
104609859 CACCTCTCTA
104609869 TTTTATCTTT-TAT
1 TTTTATCTTTATAT
104609882 TTTTATCTTTATAT
1 TTTTATCTTTATAT
104609896 TT
1 TT
104609898 CCCATGCATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTATCTTTATAT
Found at i:104612588 original size:31 final size:31
Alignment explanation
Indices: 104612550--104612627 Score: 102
Period size: 31 Copynumber: 2.5 Consensus size: 31
104612540 TTTTTCCTAA
* *
104612550 TTTGATACTTGAGTTTGGCTTCAATATTCAT
1 TTTGATACTTGAGTTTAGCTTCAATATTCAC
* * *
104612581 TTTGATACTTGAGTTTAGCTTCGATTTTTAC
1 TTTGATACTTGAGTTTAGCTTCAATATTCAC
*
104612612 TTTGGTACTTGAGTTT
1 TTTGATACTTGAGTTT
104612628 TTTCAATTTG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.19, C:0.12, G:0.18, T:0.51
Consensus pattern (31 bp):
TTTGATACTTGAGTTTAGCTTCAATATTCAC
Found at i:104617698 original size:27 final size:26
Alignment explanation
Indices: 104617672--104617728 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
104617662 TCAATCAATA
104617672 ATAATAATAATTTA-AATATATATAAT
1 ATAATAATAATTTATAATATATA-AAT
* * *
104617698 ATTATTATATTTTATAATATATAAATT
1 ATAATAATAATTTATAATATATAAA-T
104617725 ATAA
1 ATAA
104617729 GAATGAACCG
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
26 13 0.52
27 12 0.48
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (26 bp):
ATAATAATAATTTATAATATATAAAT
Found at i:104619189 original size:56 final size:57
Alignment explanation
Indices: 104619109--104619241 Score: 182
Period size: 56 Copynumber: 2.3 Consensus size: 57
104619099 AACTAATAAA
* *
104619109 TTTAATATAATATATTTTTTAAAAGTTATATAGAATTTTTAAA-TTATTTTTATTAC
1 TTTAATATAATATATTTTTTAAAAGTTATATAAAAATTTTAAATTTATTTTTATTAC
* *
104619165 TTTAATATAGTAT-TTTTTTAAAAAGTTATATAAAAATTTTAAATTTATTTTTATTAT
1 TTTAATATAATATATTTTTT-AAAAGTTATATAAAAATTTTAAATTTATTTTTATTAC
104619222 TTTAAATATTAA-ATATTTTT
1 TTT-AATA-TAATATATTTTT
104619242 ATATTATAAA
Statistics
Matches: 67, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
55 6 0.09
56 33 0.49
57 15 0.22
58 6 0.09
59 7 0.10
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (57 bp):
TTTAATATAATATATTTTTTAAAAGTTATATAAAAATTTTAAATTTATTTTTATTAC
Found at i:104619228 original size:27 final size:24
Alignment explanation
Indices: 104619210--104619275 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
104619200 ATTTTAAATT
*
104619210 TATTTTTATTATTTTAAATATTAAA
1 TATTTTTA-TATTATAAATATTAAA
*
104619235 TATTTTTATATTATAAAAATTAAA
1 TATTTTTATATTATAAATATTAAA
*
104619259 -ATTAATTATA-TATAAAT
1 TATT-TTTATATTATAAAT
104619276 TAATAAAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
23 9 0.25
24 19 0.53
25 8 0.22
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (24 bp):
TATTTTTATATTATAAATATTAAA
Found at i:104619319 original size:27 final size:32
Alignment explanation
Indices: 104619262--104619330 Score: 85
Period size: 27 Copynumber: 2.3 Consensus size: 32
104619252 AATTAAAATT
*
104619262 AATTATATATAAATTAATAAAAATAATTTTTA
1 AATTATATTTAAATTAATAAAAATAATTTTTA
104619294 AATTA-ATTTAAA-TAAT-AAAA-AA-TTTTA
1 AATTATATTTAAATTAATAAAAATAATTTTTA
*
104619321 ATTTATATTT
1 AATTATATTT
104619331 CGTAAAACGT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
27 9 0.26
28 6 0.18
29 4 0.12
30 4 0.12
31 6 0.18
32 5 0.15
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (32 bp):
AATTATATTTAAATTAATAAAAATAATTTTTA
Found at i:104626688 original size:21 final size:21
Alignment explanation
Indices: 104626647--104626689 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
104626637 ACATTATATT
* *
104626647 TTTATTAATATAAAATCTAAA
1 TTTATTAATAAAAAATATAAA
104626668 TTTATT-ATAAAAAGATATAAA
1 TTTATTAATAAAAA-ATATAAA
104626689 T
1 T
104626690 CTTAAATATG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (21 bp):
TTTATTAATAAAAAATATAAA
Found at i:104628578 original size:38 final size:38
Alignment explanation
Indices: 104628527--104628599 Score: 146
Period size: 38 Copynumber: 1.9 Consensus size: 38
104628517 TCTGATCTAA
104628527 AAGGGTTACCTCACTTGATACTATTGATCACAATGTAT
1 AAGGGTTACCTCACTTGATACTATTGATCACAATGTAT
104628565 AAGGGTTACCTCACTTGATACTATTGATCACAATG
1 AAGGGTTACCTCACTTGATACTATTGATCACAATG
104628600 CATAGATCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (38 bp):
AAGGGTTACCTCACTTGATACTATTGATCACAATGTAT
Found at i:104630929 original size:14 final size:15
Alignment explanation
Indices: 104630910--104630942 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
104630900 TTTAAAAGAG
*
104630910 AAATCAAA-TACAAA
1 AAATCAAACTAAAAA
104630924 AAATCAAACTAAAAA
1 AAATCAAACTAAAAA
104630939 AAAT
1 AAAT
104630943 GATGATTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.73, C:0.12, G:0.00, T:0.15
Consensus pattern (15 bp):
AAATCAAACTAAAAA
Found at i:104631768 original size:24 final size:24
Alignment explanation
Indices: 104631741--104631786 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
104631731 ATAGCAACCC
*
104631741 TTTATAGATTTTTTATCTTATTTA
1 TTTATAGATTTATTATCTTATTTA
**
104631765 TTTATTTATTTATTATCTTATT
1 TTTATAGATTTATTATCTTATT
104631787 ACCCTTTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.70
Consensus pattern (24 bp):
TTTATAGATTTATTATCTTATTTA
Found at i:104631773 original size:12 final size:13
Alignment explanation
Indices: 104631748--104631786 Score: 57
Period size: 12 Copynumber: 3.2 Consensus size: 13
104631738 CCCTTTATAG
104631748 ATTT-TTTATCTT
1 ATTTATTTATCTT
104631760 ATTTATTTAT-TT
1 ATTTATTTATCTT
104631772 ATTTA-TTATCTT
1 ATTTATTTATCTT
104631784 ATT
1 ATT
104631787 ACCCTTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 4 0.16
12 16 0.64
13 5 0.20
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (13 bp):
ATTTATTTATCTT
Found at i:104631860 original size:3 final size:3
Alignment explanation
Indices: 104631852--104631900 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
104631842 TTCTCGCCAA
104631852 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
104631900 T
1 T
104631901 TATTTACTGT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:104632981 original size:11 final size:11
Alignment explanation
Indices: 104632967--104633007 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
104632957 TATTTTCTCC
104632967 CTATTTTGCTA
1 CTATTTTGCTA
*
104632978 CTATTTTACTA
1 CTATTTTGCTA
* *
104632989 TTATGTTGCTA
1 CTATTTTGCTA
104633000 CTATTTTG
1 CTATTTTG
104633008 TTGTTATTGT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:104633666 original size:30 final size:30
Alignment explanation
Indices: 104633630--104633690 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
104633620 ATTTTATTGT
*
104633630 TAATTTTTTTATTATTTTAAAGACATTTGC
1 TAATTTTGTTATTATTTTAAAGACATTTGC
* *
104633660 TAATTTTGTTATTATTTTAGAGGCATTTGC
1 TAATTTTGTTATTATTTTAAAGACATTTGC
104633690 T
1 T
104633691 TCTTAAATTG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.26, C:0.07, G:0.11, T:0.56
Consensus pattern (30 bp):
TAATTTTGTTATTATTTTAAAGACATTTGC
Found at i:104633811 original size:19 final size:18
Alignment explanation
Indices: 104633771--104633810 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
104633761 GAAATATTTA
*
104633771 TTTTGATGTTTTTAGTAT
1 TTTTGATGTTTATAGTAT
104633789 TTTTGATGGTTTATA-TAT
1 TTTTGAT-GTTTATAGTAT
104633807 TTTT
1 TTTT
104633811 TAAAATTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.17, C:0.00, G:0.15, T:0.68
Consensus pattern (18 bp):
TTTTGATGTTTATAGTAT
Found at i:104633833 original size:12 final size:12
Alignment explanation
Indices: 104633812--104633845 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
104633802 TATATTTTTT
*
104633812 AAAATTATATAA
1 AAAATAATATAA
104633824 AAAATAATATAA
1 AAAATAATATAA
*
104633836 AAATTAATAT
1 AAAATAATAT
104633846 GGGCTAGCAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:104639067 original size:78 final size:78
Alignment explanation
Indices: 104638934--104639163 Score: 399
Period size: 78 Copynumber: 2.9 Consensus size: 78
104638924 GAGTCACATC
* * * *
104638934 TCATGTAACTGTAGTGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAGGTTACCAT
1 TCATGTAACTGTAGCGAATCAGGATTACCTTTTCATGTCAAATCCTATCCGCCTTAAGTTACCAT
*
104638999 AATGAATCATATA
66 AGTGAATCATATA
104639012 TCATGTAACTGTAGCGAATCAGGATTACCTTTTCATGTCAAATCCTATCCGCCTTAAGTTACCAT
1 TCATGTAACTGTAGCGAATCAGGATTACCTTTTCATGTCAAATCCTATCCGCCTTAAGTTACCAT
104639077 AGTGAATCATATA
66 AGTGAATCATATA
104639090 TCATGTAACTGTAGCGAATCAGGATTACCTTTTC-TGGTCAAATCCTATCCGCCTTAAGTTACCA
1 TCATGTAACTGTAGCGAATCAGGATTACCTTTTCAT-GTCAAATCCTATCCGCCTTAAGTTACCA
104639154 TAGTGAATCA
65 TAGTGAATCA
104639164 AGAATAAATC
Statistics
Matches: 146, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
77 1 0.01
78 145 0.99
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (78 bp):
TCATGTAACTGTAGCGAATCAGGATTACCTTTTCATGTCAAATCCTATCCGCCTTAAGTTACCAT
AGTGAATCATATA
Found at i:104639192 original size:40 final size:40
Alignment explanation
Indices: 104639128--104639265 Score: 170
Period size: 40 Copynumber: 3.5 Consensus size: 40
104639118 CTTTTCTGGT
* * * *
104639128 CAAATCCTATCCGCCTTAAGTTACCATAGTGAATCAAGAA
1 CAAATCCTATCCACTTTAAATTACCATAGTGAATCAGGAA
* *
104639168 TAAATCCTATTCACTTTAAATTACCATAGTGAATCAGGAA
1 CAAATCCTATCCACTTTAAATTACCATAGTGAATCAGGAA
* **
104639208 CAAATCCTATCCACTTTGACA-TATTATAGTGAATCAGGAA
1 CAAATCCTATCCACTTT-AAATTACCATAGTGAATCAGGAA
*
104639248 CGAATCCTATCCACTTTA
1 CAAATCCTATCCACTTTA
104639266 GATTCTCGAG
Statistics
Matches: 85, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
39 1 0.01
40 82 0.96
41 2 0.02
ACGTcount: A:0.37, C:0.22, G:0.11, T:0.30
Consensus pattern (40 bp):
CAAATCCTATCCACTTTAAATTACCATAGTGAATCAGGAA
Found at i:104645151 original size:46 final size:46
Alignment explanation
Indices: 104645036--104645361 Score: 370
Period size: 46 Copynumber: 7.0 Consensus size: 46
104645026 GCTTTCTGAA
* *
104645036 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
104645082 AT-AAATGTGTAAGACCATGGTTGAAAGATACCGTGGCAACATGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
104645127 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGGCAAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAT-G--AC
*
104645176 AGGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 -----ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * ** ** *
104645227 -GGGAATGAATAAGACCATGGTTGAAAGATACCATGGCAATGTAAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*** *
104645272 ATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACCTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * * *
104645318 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
104645362 TCAAAGATAA
Statistics
Matches: 243, Mismatches: 26, Indels: 22
0.84 0.09 0.08
Matches are distributed among these distances:
45 80 0.33
46 115 0.47
47 1 0.00
49 2 0.01
51 2 0.01
53 1 0.00
54 42 0.17
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:104645302 original size:145 final size:145
Alignment explanation
Indices: 104645039--104645312 Score: 422
Period size: 145 Copynumber: 1.9 Consensus size: 145
104645029 TTCTGAAATG
* * **
104645039 AAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGATATAAATGTGTAAGACCATGGTT
1 AAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGACAGAAATGAATAAGACCATGGTT
* * ***
104645104 GAAAGATACCGTGGCAACATGACATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
66 GAAAGATACCATGGCAACATAACATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACA
104645169 TGGCAACAGGATATA
131 TGGCAACAGGATATA
* * *
104645184 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAATGAATAAGACCATGGTT
1 AAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGACAGAAATGAATAAGACCATGGTT
**
104645249 GAAAGATACCATGGCAATGTAACATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
66 GAAAGATACCATGGCAACATAACATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
104645313 CTGACAGAAA
Statistics
Matches: 115, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
145 115 1.00
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.20
Consensus pattern (145 bp):
AAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGACAGAAATGAATAAGACCATGGTT
GAAAGATACCATGGCAACATAACATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACA
TGGCAACAGGATATA
Found at i:104645379 original size:91 final size:90
Alignment explanation
Indices: 104645046--104645356 Score: 273
Period size: 91 Copynumber: 3.3 Consensus size: 90
104645036 ATGAAATGTG
* ** * * * ***
104645046 TAAGACCATGGTTGAAAGACACCATGGCAACATGATATAAATGTGTAAGACCATGGTTGAAAGAT
1 TAAGACCATAGTTGAAAGACACCATGGCAATGTAACATGAATAAATAAGACCATGGTTGAAAGAT
* **
104645111 ACCGTGGCAACATGAC-ATGAAATGTG
66 ACCATGGCAACATGACGA--AAATGAA
* * * *
104645137 TAAGACCATGGTTGAAAGATACCATGGCAACATGGCAACAGGATATAAAATGTGTAAGACCATGG
1 TAAGACCATAGTTGAAAGACACCATGGC-A-AT-GTAACATGA-AT-AAA----TAAGACCATGG
**
104645202 TTGAAAGATACCATGGCAACATGACGGGAATGAA
57 TTGAAAGATACCATGGCAACATGACGAAAATGAA
* * * *
104645236 TAAGACCATGGTTGAAAGATACCATGGCAATGTAACATGAAATGAACAAGACCATGGTTGAAAGA
1 TAAGACCATAGTTGAAAGACACCATGGCAATGTAACATG-AATAAATAAGACCATGGTTGAAAGA
* *
104645301 TACCATGGCAACCTGACAGAAAATGAG
65 TACCATGGCAACATGAC-GAAAATGAA
*
104645328 TAAGACCATAGTTGAAAGACACTATGGCA
1 TAAGACCATAGTTGAAAGACACCATGGCA
104645357 TCATGTCAAA
Statistics
Matches: 181, Mismatches: 27, Indels: 23
0.78 0.12 0.10
Matches are distributed among these distances:
91 61 0.34
92 33 0.18
93 1 0.01
94 3 0.02
95 4 0.02
96 8 0.04
97 3 0.02
98 1 0.01
99 32 0.18
100 35 0.19
ACGTcount: A:0.41, C:0.16, G:0.24, T:0.20
Consensus pattern (90 bp):
TAAGACCATAGTTGAAAGACACCATGGCAATGTAACATGAATAAATAAGACCATGGTTGAAAGAT
ACCATGGCAACATGACGAAAATGAA
Found at i:104645663 original size:16 final size:17
Alignment explanation
Indices: 104645642--104645674 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
104645632 ATGATGGAGC
104645642 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
104645658 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
104645675 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:104650080 original size:20 final size:21
Alignment explanation
Indices: 104650041--104650080 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
104650031 TTCATGATAA
*
104650041 TTGATGAAATATTGATAATAC
1 TTGATGAAATATTGAAAATAC
*
104650062 TTGATGTAA-ATTGAAAATA
1 TTGATGAAATATTGAAAATA
104650081 AATCCCGGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.45, C:0.03, G:0.15, T:0.38
Consensus pattern (21 bp):
TTGATGAAATATTGAAAATAC
Found at i:104650467 original size:46 final size:46
Alignment explanation
Indices: 104650415--104650822 Score: 530
Period size: 46 Copynumber: 8.9 Consensus size: 46
104650405 TTTTGAAATG
*
104650415 AAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGATATA
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATA
* *
104650461 AAATGTGTAAGACCATGGTTGAAAGATACCGTGGCAACATGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATA
*
104650507 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGATATA
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATA
*
104650553 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGATATA
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATA
*
104650599 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGATATA
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATA
* ***
104650645 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGA-CGG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATA
* ** * ** * * *
104650690 GAATGAATAAGACCATGGTTGAAAGATACCATAGCAATGTAACATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATA
*** ** * *
104650736 AAATGAACAAGACCATGGTTGAAAGATACCATGGCAACCCGACAGA
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATA
* * * * *
104650782 AAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
104650823 TCAAAGATAA
Statistics
Matches: 325, Mismatches: 36, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
45 36 0.11
46 289 0.89
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATA
Found at i:104651124 original size:16 final size:17
Alignment explanation
Indices: 104651103--104651135 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
104651093 ATGATGGAGC
104651103 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
104651119 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
104651136 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:104653619 original size:6 final size:7
Alignment explanation
Indices: 104653593--104653630 Score: 58
Period size: 7 Copynumber: 5.1 Consensus size: 7
104653583 TTAAAATTTC
104653593 AAAAAATT
1 AAAAAA-T
104653601 ACAAAAAT
1 A-AAAAAT
104653609 AAAAAAT
1 AAAAAAT
104653616 AAAAAAT
1 AAAAAAT
104653623 AAAAAAT
1 AAAAAAT
104653630 A
1 A
104653631 TCAATGCAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
7 21 0.72
8 3 0.10
9 5 0.17
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.16
Consensus pattern (7 bp):
AAAAAAT
Found at i:104655322 original size:2 final size:2
Alignment explanation
Indices: 104655315--104655364 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
104655305 TCAGGTCTAT
104655315 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
104655357 TC TC TC TC
1 TC TC TC TC
104655365 AAACATAGAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:104663352 original size:84 final size:84
Alignment explanation
Indices: 104663194--104663438 Score: 228
Period size: 84 Copynumber: 2.9 Consensus size: 84
104663184 AATAAATAGG
* * * * * * * * *
104663194 TTCGAGATTTTTGCCAAGGTTTTTTCAGCCTTCTCAATTATTTAATCTTACAAGTTAAAT-TCAT
1 TTCGAGATTTCTGTCGAGGTTGTTTCAGCATTTTCAATTATTTAATTTTAAAACTTAAATCTC-T
* * * * *
104663258 TTTCTCAAAAATGAGTTGAGT
65 TTTTTGAAAAATAAG-AGAGC
*
104663279 TTCGAGATTTCTGT-GAGGTTGTTTCAGCATTTTCAATTATTTAATTTTAAAACTTGAATCTCTT
1 TTCGAGATTTCTGTCGAGGTTGTTTCAGCATTTTCAATTATTTAATTTTAAAACTTAAATCTCTT
104663343 TTTTGAAAAAACTATAAGAGAGC
66 TTTTG--AAAA--ATAAGAGAGC
* * * * *
104663366 TTCGAGATTTCTGTCGAGGTCGTTTTAGCATTTTTAATTATTT-A-TTTAGAACTCAAATCTCTT
1 TTCGAGATTTCTGTCGAGGTTGTTTCAGCATTTTCAATTATTTAATTTTAAAACTTAAATCTCTT
104663429 TTTTGAAAAA
66 TTTTGAAAAA
104663439 ATATAAGAAA
Statistics
Matches: 133, Mismatches: 21, Indels: 15
0.79 0.12 0.09
Matches are distributed among these distances:
82 1 0.01
84 46 0.35
85 14 0.11
86 25 0.19
87 18 0.14
88 29 0.22
ACGTcount: A:0.29, C:0.13, G:0.14, T:0.44
Consensus pattern (84 bp):
TTCGAGATTTCTGTCGAGGTTGTTTCAGCATTTTCAATTATTTAATTTTAAAACTTAAATCTCTT
TTTTGAAAAATAAGAGAGC
Found at i:104663439 original size:87 final size:86
Alignment explanation
Indices: 104663279--104663446 Score: 250
Period size: 86 Copynumber: 2.0 Consensus size: 86
104663269 TGAGTTGAGT
* **
104663279 TTCGAGATTTCTGTGAGGTTGTTTCAGCATTTTCAATTATTTAATTTTAAAACTTGAATCTCTTT
1 TTCGAGATTTCTGTGAGGTCGTTTCAGCATTTTCAATTATTTAATTTTAAAACTCAAATCTCTTT
104663344 TTTGAAAAAACTATAAGAGAGC
66 TTTGAAAAAA-TATAAGAGAGC
* * *
104663366 TTCGAGATTTCTGTCGAGGTCGTTTTAGCATTTTTAATTATTT-A-TTTAGAACTCAAATCTCTT
1 TTCGAGATTTCTGT-GAGGTCGTTTCAGCATTTTCAATTATTTAATTTTAAAACTCAAATCTCTT
104663429 TTTTGAAAAAATATAAGA
65 TTTTGAAAAAATATAAGA
104663447 AAGTTTCCTA
Statistics
Matches: 74, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
85 7 0.09
86 27 0.36
87 15 0.20
88 25 0.34
ACGTcount: A:0.31, C:0.11, G:0.14, T:0.43
Consensus pattern (86 bp):
TTCGAGATTTCTGTGAGGTCGTTTCAGCATTTTCAATTATTTAATTTTAAAACTCAAATCTCTTT
TTTGAAAAAATATAAGAGAGC
Found at i:104665616 original size:2 final size:2
Alignment explanation
Indices: 104665611--104665644 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
104665601 AGTATTAAAA
*
104665611 AT AT AT AT AC AT A- AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
104665645 AAGGTATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:104665710 original size:50 final size:50
Alignment explanation
Indices: 104665603--104665719 Score: 123
Period size: 50 Copynumber: 2.3 Consensus size: 50
104665593 ATATATGTAG
* *
104665603 TATTAAAAATATATATACATAATATATATATATATATATATAAAGGTATAAT
1 TATT-AAAATATATATACATAATATATATAAATATATACATAAA-GTATAAT
* * *
104665655 T-TTAAAATGTATATACATGATATATATGAAAATATATACAT-AA-TATAGT
1 TATTAAAATATATATACATAATATATAT--AAATATATACATAAAGTATAAT
*
104665704 TATTAAAAAATATATA
1 TATTAAAATATATATA
104665720 TATACAACAT
Statistics
Matches: 55, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
49 6 0.11
50 34 0.62
51 4 0.07
52 11 0.20
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.39
Consensus pattern (50 bp):
TATTAAAATATATATACATAATATATATAAATATATACATAAAGTATAAT
Found at i:104665716 original size:25 final size:23
Alignment explanation
Indices: 104665665--104665717 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 23
104665655 TTTAAAATGT
* *
104665665 ATATACATGATATATATGAAAAT
1 ATATACATAATATATATGAAAAA
*
104665688 ATATACATAATATAGTTATTAAAAA
1 ATATACATAATATA--TATGAAAAA
104665713 ATATA
1 ATATA
104665718 TATATACAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 13 0.52
25 12 0.48
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.36
Consensus pattern (23 bp):
ATATACATAATATATATGAAAAA
Found at i:104666045 original size:3 final size:3
Alignment explanation
Indices: 104666037--104666073 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
104666027 ACATTACTAT
104666037 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
104666074 AGAAATGCAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:104668786 original size:16 final size:16
Alignment explanation
Indices: 104668767--104668800 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
104668757 ATGAGTTCGT
*
104668767 ATCATTTTAAGTTTAG
1 ATCATTTTAAGTATAG
104668783 ATCATTTTAAGTATAG
1 ATCATTTTAAGTATAG
104668799 AT
1 AT
104668801 ATTAACTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.47
Consensus pattern (16 bp):
ATCATTTTAAGTATAG
Found at i:104673448 original size:8 final size:8
Alignment explanation
Indices: 104673435--104673462 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
104673425 GACTTGTAAG
104673435 AAAAAAGA
1 AAAAAAGA
104673443 AAAAAAGA
1 AAAAAAGA
104673451 AAAAAAGA
1 AAAAAAGA
104673459 AAAA
1 AAAA
104673463 TTAAGGGACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (8 bp):
AAAAAAGA
Found at i:104677607 original size:2 final size:2
Alignment explanation
Indices: 104677600--104677637 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
104677590 ACAATAATAC
* *
104677600 TA TA TA TA AA TA TA TA TA TA TA TA TA TA TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
104677638 ATAGAAATAC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:104678004 original size:3 final size:3
Alignment explanation
Indices: 104677996--104678076 Score: 62
Period size: 3 Copynumber: 26.3 Consensus size: 3
104677986 GCATATATAT
104677996 ATA ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GA-A ATA ATA ATA
1 ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A -ATA ATA ATA ATA
* *
104678041 ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA ATA A
1 ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
104678077 AACAAAGCTC
Statistics
Matches: 64, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
2 7 0.11
3 46 0.72
4 9 0.14
5 2 0.03
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:104678015 original size:12 final size:12
Alignment explanation
Indices: 104677992--104678073 Score: 69
Period size: 12 Copynumber: 6.5 Consensus size: 12
104677982 GAGGGCATAT
104677992 ATATATAATAATA
1 ATATA-AATAATA
104678005 ATATAAATAATA
1 ATATAAATAATA
104678017 ATATATACATGAGA-A
1 ATATA-A-AT-A-ATA
104678032 ATA-ATAATAATA
1 ATATA-AATAATA
104678044 ATATAAATAATA
1 ATATAAATAATA
* *
104678056 GTAAAAATAATA
1 ATATAAATAATA
*
104678068 AAATAA
1 ATATAA
104678074 TAAAACAAAG
Statistics
Matches: 58, Mismatches: 5, Indels: 13
0.76 0.07 0.17
Matches are distributed among these distances:
11 1 0.02
12 37 0.64
13 9 0.16
14 5 0.09
15 5 0.09
16 1 0.02
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (12 bp):
ATATAAATAATA
Found at i:104678020 original size:27 final size:27
Alignment explanation
Indices: 104677990--104678076 Score: 76
Period size: 27 Copynumber: 3.4 Consensus size: 27
104677980 GAGAGGGCAT
104677990 ATATATATAATAATAATATAAATAATA
1 ATATATATAATAATAATATAAATAATA
* * *
104678017 ATATATA-CATGAGAA-AT-AATAATA
1 ATATATATAATAATAATATAAATAATA
* *
104678041 ATA-ATATAAATAATAGTAAAAATAATA
1 ATATATAT-AATAATAATATAAATAATA
*
104678068 AAATA-ATAA
1 ATATATATAA
104678077 AACAAAGCTC
Statistics
Matches: 46, Mismatches: 9, Indels: 11
0.70 0.14 0.17
Matches are distributed among these distances:
23 3 0.07
24 10 0.22
25 6 0.13
26 8 0.17
27 18 0.39
28 1 0.02
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.31
Consensus pattern (27 bp):
ATATATATAATAATAATATAAATAATA
Found at i:104678035 original size:21 final size:18
Alignment explanation
Indices: 104677996--104678076 Score: 76
Period size: 18 Copynumber: 4.4 Consensus size: 18
104677986 GCATATATAT
*
104677996 ATAATAATAATATAAATA
1 ATAATAATAATAGAAATA
104678014 ATAATATATACATGAGAAATA
1 ATAATA-ATA-AT-AGAAATA
*
104678035 ATAATAATAATATAAATA
1 ATAATAATAATAGAAATA
* *
104678053 ATAGTAAAAATA-ATAA-A
1 ATAATAATAATAGA-AATA
104678070 ATAATAA
1 ATAATAA
104678077 AACAAAGCTC
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
17 8 0.15
18 24 0.44
19 5 0.09
20 5 0.09
21 12 0.22
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (18 bp):
ATAATAATAATAGAAATA
Found at i:104679109 original size:44 final size:44
Alignment explanation
Indices: 104678905--104680325 Score: 1046
Period size: 44 Copynumber: 32.2 Consensus size: 44
104678895 GGCGATATCC
* * * * * * *
104678905 GCTATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATTT
1 GCTATCTTCGATTTG-TTCCCTATAAGCACAGGGATGCCAGATCT
** *
104678950 GCTATCTTCGATCCGTTCCCTATAAGCACAGGGATGCCAAATCT
1 GCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAGATCT
* * * * *
104678994 GATGTTTTTCAACTTGTTCCCTATAAGCACAGGGATGCC--ATGCT
1 GCT-ATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAGAT-CT
** * * * * * *
104679038 GAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCT
1 GCTATCTTCGATTTG-TTCCCTATAAGCACAGGGATGCCAGATCT
* * *
104679083 GCTATCTTCGATTTGTTCCCTATAAGCACAGGGATACCAAATAT
1 GCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAGATCT
* * * * * *
104679127 GATGTTTTCAACTTGTTCCCTATAAGCACAGGGATG-C-TATGCT
1 GCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAGAT-CT
** * * * * * *
104679170 GAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCT
1 GCTATCTTCGATTTG-TTCCCTATAAGCACAGGGATGCCAGATCT
*
104679215 GCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAAATCT
1 GCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAGATCT
* * * * *
104679259 GATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCC--ATGCT
1 GCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAGAT-CT
** * * * * * * *
104679302 GAAATCTTTGATCTGCTTCACTGTAAGCATAGGAATGTCAGATCT
1 GCTATCTTCGATTTG-TTCCCTATAAGCACAGGGATGCCAGATCT
* * *
104679347 GCTATCTTCTATTTGTTCCCTATAAGCATAGGGATGCCAAATCT
1 GCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAGATCT
* * *
104679391 GCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCC--ATGCT
1 GCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAGAT-CT
** * * * *
104679434 GAAATCTTCGATCTGCTTCCACTGTAAGCACAGGAATGTCAGATCT
1 GCTATCTTCGATTTG-TTCC-CTATAAGCACAGGGATGCCAGATCT
* *
104679480 GCTATCTTCGATTTGTTCCCTATAAGCATAGGGATGCCAAATCT
1 GCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAGATCT
* * * *
104679524 GCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCC--ATGCT
1 GCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAGAT-CT
** * * * * * *
104679567 GAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCT
1 GCTATCTTCGATTTG-TTCCCTATAAGCACAGGGATGCCAGATCT
* ** * *
104679612 GTTATCTTTAATTTATTCCCTATAAGCACAGGGATGCCAAATCT
1 GCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAGATCT
* * * * * *
104679656 GATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCAAATCT
1 GCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAGATCT
* * * * *
104679700 GATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCC--ATGCT
1 GCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAGAT-CT
** * * * * * * *
104679743 GAAATCTTTGATCTGCTTCACTGTAAGCATAGGAATGTCAGATCT
1 GCTATCTTCGATTTG-TTCCCTATAAGCACAGGGATGCCAGATCT
*
104679788 GCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAAATCT
1 GCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAGATCT
* * * *
104679832 GCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCC--ATGCT
1 GCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAGAT-CT
** ** * * *
104679875 GAAATCTTCGATTTGCTTCATTGTAAGCACAGGAATGTCAGATCT
1 GCTATCTTCGATTTG-TTCCCTATAAGCACAGGGATGCCAGATCT
* *
104679920 GCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAAATTT
1 GCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAGATCT
* * * * * *
104679964 TCTGTTTTCAACTTGTTCCTTATAAGCACAGGGATGCC--ATGCT
1 GCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAGAT-CT
** * ** * * *
104680007 GAAATCTTCGATCTGCTTTACTGTAAGCACAGGAATGTCAGATCT
1 GCTATCTTCGATTTG-TTCCCTATAAGCACAGGGATGCCAGATCT
*
104680052 GCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAAATCT
1 GCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAGATCT
* * * * *
104680096 GTTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATG-T-T
1 GCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCA-GATCT
** * ** * * * *
104680139 GAAATCTTTGATCTACTTCACTGTAAGCACAGGAATGTCAGATCT
1 GCTATCTTCGAT-TTGTTCCCTATAAGCACAGGGATGCCAGATCT
*
104680184 GCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAAATCT
1 GCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAGATCT
* * * * *
104680228 GCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGTC--ATGCT
1 GCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAGAT-CT
** * * * *
104680271 GAAATCTTCGATCTGCTTCACTATAAGCACAGGAATGTCAGATCT
1 GCTATCTTCGATTTG-TTCCCTATAAGCACAGGGATGCCAGATCT
104680316 GCTATCTTCG
1 GCTATCTTCG
104680326 GTCTGCTCCT
Statistics
Matches: 1067, Mismatches: 267, Indels: 84
0.75 0.19 0.06
Matches are distributed among these distances:
42 16 0.01
43 94 0.09
44 750 0.70
45 175 0.16
46 30 0.03
47 2 0.00
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (44 bp):
GCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAGATCT
Found at i:104679213 original size:132 final size:132
Alignment explanation
Indices: 104678908--104679694 Score: 1394
Period size: 132 Copynumber: 5.9 Consensus size: 132
104678898 GATATCCGCT
* **
104678908 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATTTGCTATCTTCGATCCGTTCCCTAT
1 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
104678973 AAGCACAGGGATGCCAAATCTGATGTTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCT
66 AAGCACAGGGATGCCAAATCTGATG-TTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCT
104679038 GAA
130 GAA
104679041 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
1 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
* * *
104679106 AAGCACAGGGATACCAAATATGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCTATGCTG
66 AAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
104679171 AA
131 AA
104679173 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
1 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
104679238 AAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
66 AAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
104679303 AA
131 AA
* *
104679305 ATCTTTGATCTGCTTCACTGTAAGCATAGGAATGTCAGATCTGCTATCTTCTATTTGTTCCCTAT
1 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
* * *
104679370 AAGCATAGGGATGCCAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
66 AAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
104679435 AA
131 AA
*
104679437 ATCTTCGATCTGCTTCCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTA
1 ATCTTTGATCTGCTT-CACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTA
* *
104679502 TAAGCATAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCT
65 TAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCT
104679567 GAA
130 GAA
* ** *
104679570 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGTTATCTTTAATTTATTCCCTAT
1 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
104679635 AAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCA
66 AAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCA
104679695 AATCTGATGT
Statistics
Matches: 628, Mismatches: 25, Indels: 3
0.96 0.04 0.00
Matches are distributed among these distances:
132 415 0.66
133 213 0.34
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (132 bp):
ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
AAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
AA
Found at i:104679459 original size:265 final size:264
Alignment explanation
Indices: 104678908--104679694 Score: 1396
Period size: 265 Copynumber: 3.0 Consensus size: 264
104678898 GATATCCGCT
* **
104678908 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATTTGCTATCTTCGATCCGTTCCCTAT
1 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
104678973 AAGCACAGGGATGCCAAATCTGATGTTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCT
66 AAGCACAGGGATGCCAAATCTGATG-TTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCT
*
104679038 GAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCC
130 GAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCTATTTGTTCCC
* * *
104679103 TATAAGCACAGGGATACCAAATATGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCTATG
195 TATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATG
104679168 CTGAA
260 CTGAA
104679173 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
1 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
104679238 AAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
66 AAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
*
104679303 AAATCTTTGATCTGCTTCACTGTAAGCATAGGAATGTCAGATCTGCTATCTTCTATTTGTTCCCT
131 AAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCTATTTGTTCCCT
* * *
104679368 ATAAGCATAGGGATGCCAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGC
196 ATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGC
104679433 TGAA
261 TGAA
*
104679437 ATCTTCGATCTGCTTCCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTA
1 ATCTTTGATCTGCTT-CACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTA
* *
104679502 TAAGCATAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCT
65 TAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCT
* *
104679567 GAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGTTATCTT-TAATTTATTCC
130 GAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCT-ATTTGTTCC
104679631 CTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCA
194 CTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCA
104679695 AATCTGATGT
Statistics
Matches: 500, Mismatches: 20, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
264 181 0.36
265 319 0.64
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (264 bp):
ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
AAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
AAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCTATTTGTTCCCT
ATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGC
TGAA
Found at i:104679641 original size:397 final size:397
Alignment explanation
Indices: 104678908--104679694 Score: 1396
Period size: 397 Copynumber: 2.0 Consensus size: 397
104678898 GATATCCGCT
*
104678908 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATTTGCTATCTTCGATCCGTTCCCTAT
1 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCCGTTCCCTAT
*
104678973 AAGCACAGGGATGCCAAATCTGATGTTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCT
66 AAGCACAGGGATGCCAAATCTGATGATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCT
*
104679038 GAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCC
131 GAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCC
*
104679103 TATAAGCACAGGGATACCAAATATGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCTATG
196 TATAAGCACAGGGATACCAAATATGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATG
* *
104679168 CTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTC
261 CTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCAATTTATTC
104679233 CCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCA
326 CCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCA
104679298 TGCTGAA
391 TGCTGAA
* * **
104679305 ATCTTTGATCTGCTTCACTGTAAGCATAGGAATGTCAGATCTGCTATCTTCTATTTGTTCCCTAT
1 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCCGTTCCCTAT
* *
104679370 AAGCATAGGGATGCCAAATCTGCT-ATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCT
66 AAGCACAGGGATGCCAAATCTGATGATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCT
104679434 GAAATCTTCGATCTGCTTCCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCC
131 GAAATCTTCGATCTGCTT-CACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCC
* * * *
104679499 CTATAAGCATAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCAT
195 CTATAAGCACAGGGATACCAAATATGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCAT
* *
104679564 GCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGTTATCTTTAATTTATT
260 GCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCAATTTATT
104679629 CCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCC
325 CCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCC
104679694 A
390 A
104679695 AATCTGATGT
Statistics
Matches: 371, Mismatches: 18, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
396 56 0.15
397 315 0.85
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (397 bp):
ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCCGTTCCCTAT
AAGCACAGGGATGCCAAATCTGATGATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCT
GAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCC
TATAAGCACAGGGATACCAAATATGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATG
CTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCAATTTATTC
CCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCA
TGCTGAA
Found at i:104679726 original size:132 final size:133
Alignment explanation
Indices: 104678918--104680320 Score: 1268
Period size: 132 Copynumber: 10.6 Consensus size: 133
104678908 ATCTTTGATC
* * * **
104678918 TGCTTCACTGTAAGCACAGGAATGTCAGATTTGCTATCTTCGATCCGTTCCCTATAAGCACAGGG
1 TGCTTCCCTATAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAGCACAGGG
* *
104678983 ATGCCAAATCTGATGTTTTTCAACTTGTTCCCTATAAGCACAGGGATGCC-ATGCTGAAATCTTT
66 ATGCCAAATCTGCT-ATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCAATGCTGAAAT-TTT
* *
104679047 GATC-
129 CAACT
* *
104679051 TGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAGCACAGGG
1 TGCTTCCCTATAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAGCACAGGG
* * * * * *
104679116 ATACCAAATATGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATG-CTATGCTGAAATCTTTG
66 ATGCCAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCAATGCTGAAAT-TTTC
*
104679180 ATC-
130 AACT
* *
104679183 TGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAGCACAGGG
1 TGCTTCCCTATAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAGCACAGGG
* * *
104679248 ATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCC-ATGCTGAAATCTTTG
66 ATGCCAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCAATGCTGAAAT-TTTC
*
104679312 ATC-
130 AACT
* * * * *
104679315 TGCTTCACTGTAAGCATAGGAATGTCAGATCTGCTATCTTCTATTTGTTCCCTATAAGCATAGGG
1 TGCTTCCCTATAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAGCACAGGG
* *
104679380 ATGCCAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCC-ATGCTGAAATCTTCG
66 ATGCCAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCAATGCTGAAATTTTCA
104679444 A-T
131 ACT
* *
104679446 CTGCTTCCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAGCATAG
1 -TGCTTCC-CTATAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAGCACAG
*
104679511 GGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCC-ATGCTGAAATCTT
64 GGATGCCAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCAATGCTGAAAT-TT
* *
104679575 TGATC-
128 TCAACT
* * * ** *
104679580 TGCTTCACTGTAAGCACAGGAATGTCAGATCTGTTATCTTTAATTTATTCCCTATAAGCACAGGG
1 TGCTTCCCTATAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAGCACAGGG
* * **
104679645 ATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCAAAT-CTGATGTTTTC
66 ATGCCAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCC-AATGCTGAAATTTTC
104679709 AACT
130 AACT
* * ** * * * * *
104679713 TG-TTCCCTATAAGCACAGGGATG-C-CATGCTGAAATCTTTGATCTGCTTCACTGTAAGCATAG
1 TGCTTCCCTATAAGCACAGGAATGTCAGAT-CTGCTATCTTCGATTTG-TTCCCTATAAGCACAG
* * * * * * ***
104679775 GAATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAAAT-CTGCTGTTT
64 GGATGCCAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCC-AATGCTGAAATTT
104679839 TCAACT
128 TCAACT
* * ** ** *
104679845 TG-TTCCCTATAAGCACAGGGATG-C-CATGCTGAAATCTTCGATTTGCTTCATTGTAAGCACAG
1 TGCTTCCCTATAAGCACAGGAATGTCAGAT-CTGCTATCTTCGATTTG-TTCCCTATAAGCACAG
* * * * * * *
104679907 GAATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAAATTTTCTG---T
64 GGATGCCAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCC-AA--TGCTGAAAT
104679969 TTTCAACT
126 TTTCAACT
* * * ** * ** *
104679977 TG-TTCCTTATAAGCACAGGGATG-C-CATGCTGAAATCTTCGATCTGCTTTACTGTAAGCACAG
1 TGCTTCCCTATAAGCACAGGAATGTCAGAT-CTGCTATCTTCGATTTG-TTCCCTATAAGCACAG
* * * * * * ***
104680039 GAATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAAAT-CTGTTGTTT
64 GGATGCCAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCC-AATGCTGAAATTT
104680103 TCAACT
128 TCAACT
* * ** * ** * *
104680109 TG-TTCCCTATAAGCACAGGGATGCCATG-T-TGAAATCTTTGATCTACTTCACTGTAAGCACAG
1 TGCTTCCCTATAAGCACAGGAATGTCA-GATCTGCTATCTTCGAT-TTGTTCCCTATAAGCACAG
* * * * * * ***
104680171 GAATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAAAT-CTGCTGTTT
64 GGATGCCAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCC-AATGCTGAAATTT
104680235 TCAACT
128 TCAACT
* ** * *
104680241 TG-TTCCCTATAAGCACAGGGATGTC--ATGCTGAAATCTTCGATCTGCTTCACTATAAGCACAG
1 TGCTTCCCTATAAGCACAGGAATGTCAGAT-CTGCTATCTTCGATTTG-TTCCCTATAAGCACAG
* * *
104680303 GAATGTCAGATCTGCTAT
64 GGATGCCAAATCTGCTAT
104680321 CTTCGGTCTG
Statistics
Matches: 1165, Mismatches: 79, Indels: 53
0.90 0.06 0.04
Matches are distributed among these distances:
129 3 0.00
130 4 0.00
131 16 0.01
132 930 0.80
133 203 0.17
134 6 0.01
135 3 0.00
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (133 bp):
TGCTTCCCTATAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAGCACAGGG
ATGCCAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCAATGCTGAAATTTTCA
ACT
Found at i:104680463 original size:68 final size:68
Alignment explanation
Indices: 104680378--104680577 Score: 278
Period size: 68 Copynumber: 3.0 Consensus size: 68
104680368 TCTTCTTTCA
* * * *
104680378 TCTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCTCTCCAATACCATTTCTGGAAGAAGAGG
1 TCTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATACCATTTCAGGAAGAAAAGA
*
104680443 T-T
66 TCC
* **
104680445 TGCTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGAAGAAAAG
1 T-CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATACCATTTCAGGAAGAAAAG
104680510 ATCC
65 ATCC
** *
104680514 TCTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGTCATTTCAGGGA-AAAAGA
1 TCTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATACCATTTCAGGAAGAAAAGA
104680578 AATTTGTAAT
Statistics
Matches: 119, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
67 7 0.06
68 111 0.93
69 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.28
Consensus pattern (68 bp):
TCTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATACCATTTCAGGAAGAAAAGA
TCC
Found at i:104680781 original size:88 final size:85
Alignment explanation
Indices: 104680579--104681145 Score: 308
Period size: 87 Copynumber: 6.5 Consensus size: 85
104680569 GGAAAAAGAA
* * * ** * * *
104680579 ATTTGTAATTTCCAGCCTGTTACCCTACTACTTAGGGGTTTAAG-GTCCATCATCTTCGATCTAT
1 ATTTGTAAATT-CAGCCTGTTACCCTACTGCTTAGGGG-TTAAGATTGTA-AATCTTCG-CCTGT
* *
104680643 TTCCCAACTGCTTAAGGGG-TTAAG
62 TACCCTACTGCTT-AGGGGTTTAAG
* * *
104680667 ATCTGTAAATTCAACCTGTTACCCTACTGGTTAGGGGTTAAGATTTGTAAATCTTCAGCCTGTTA
1 ATTTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTAAGA-TTGTAAATCTTC-GCCTGTTA
*
104680732 CCCTAACTGCTTAGGGGTTTATG
64 CCCT-ACTGCTTAGGGGTTTAAG
* * * **** * *
104680755 GTTTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAA-AGCCCATCATCTTCGATCTGTT
1 ATTTGTAAATTCAGCCTGTTACCCTACTGCTTA-GGGGTTAAGATTGTA-AATCTTCG-CCTGTT
* *
104680819 TCCCTACTGCTTAGGGGGTTAAG
63 ACCCTACTGCTTAGGGGTTTAAG
* * *
104680842 ATTTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGTTAAGGCTTGTAAAT-TTGGCTTGTT
1 ATTTGTAAA--TTCAGCCTGTTACCCTACTGCTTAGGGGTTAA-GATTGTAAATCTTCGCCTGTT
*
104680906 ACCCTACTGCTTAGGGGTTAAAG
63 ACCCTACTGCTTAGGGGTTTAAG
*** * ** * * * * *
104680929 CCCAT-CATCTTC-GATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCT-T-CATCTTTGATCTG
1 -ATTTGTAAATTCAG-CCTGTTACCCTACTGCTTA-GGGGTTAAGAT-TGTAAATCTTCG-CCTG
* *
104680990 TTTCCCTACTGCTTAGGGAG-ATAAG
61 TTACCCTACTGCTTAGGG-GTTTAAG
* * * * * * *** *** * *
104681015 ATCTG-CAATTCGGTCTGTTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTT
1 ATTTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGG-TTAAGATTGTAAATCTTCG-CCTGTTA
*
104681079 CCCTACTGCTTAGGGGGTTAAG
64 CCCTACTGCTTAGGGGTTTAAG
* *
104681101 ATCTGTAAATCTTCAGCCTGTTACCCTATTGCTTAGGGGCTTAAG
1 ATTTGTAAA--TTCAGCCTGTTACCCTACTGCTTAGGGG-TTAAG
104681146 GCTTGTGAAT
Statistics
Matches: 370, Mismatches: 81, Indels: 55
0.73 0.16 0.11
Matches are distributed among these distances:
84 7 0.02
85 54 0.15
86 75 0.20
87 95 0.26
88 78 0.21
89 60 0.16
90 1 0.00
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.36
Consensus pattern (85 bp):
ATTTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTAAGATTGTAAATCTTCGCCTGTTACC
CTACTGCTTAGGGGTTTAAG
Found at i:104680980 original size:43 final size:43
Alignment explanation
Indices: 104680595--104681145 Score: 336
Period size: 44 Copynumber: 12.7 Consensus size: 43
104680585 AATTTCCAGC
* * * *
104680595 CTGTTACCCTACTACTTAGGGGTTTAAGGTCCATCATCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGAT-CTTCATCTTCGAT
* * * * ** * *
104680639 CTATTTCCCAACTGCTTAAGGGGTTAAGATCTGT-AAATTCAAC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCT-TCATCTTCGAT
* * * *
104680682 CTGTTACCCTACTGGTTA-GGGGTTAAGATTTGTAAATCTTC-AGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCT-T-CATCTTCGA-T
* * * * ** *
104680726 CTGTTACCCTAACTGCTTAGGGGTTTATGGT-TTGTAAATTCG-G
1 CTGTTACCCT-ACTGCTTAGGGGGTTAAGATCTT-CATCTTCGAT
** *
104680769 CTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGAT
1 C-TGTTACCCTACTGCTTAGGGGGTT-AAGATCTTCATCTTCGAT
* * * *
104680814 CTGTTTCCCTACTGCTTAGGGGGTTAAGATTTGTAAATCTTC-AGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCT-T-CATCTTCGA-T
* * * *
104680859 CTGTTACCCTACTGCTTA-GGGGTTAAG-GCTTGTAAAT-TTGGCT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATC-T-T-CATCTTCGAT
** *
104680902 -TGTTACCCTACTGCTTA-GGGGTTAAAGCCCATCATCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTT-AAGATCTTCATCTTCGAT
* *
104680944 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTTCATCTTTGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTTCATCTTCGAT
* * * * * *
104680987 CTGTTTCCCTACTGCTTAGGGAGATAAGATCTGCA-ATTCGGT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTTCATCTTCGAT
* * * * *
104681029 CTGTTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGA-TCTTCATCTTCGAT
* * *
104681073 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTC-AGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCT-T-CATCTTCGA-T
* *
104681118 CTGTTACCCTATTGCTTAGGGGCTTAAG
1 CTGTTACCCTACTGCTTAGGGGGTTAAG
104681146 GCTTGTGAAT
Statistics
Matches: 393, Mismatches: 88, Indels: 51
0.74 0.17 0.10
Matches are distributed among these distances:
41 2 0.01
42 69 0.18
43 111 0.28
44 140 0.36
45 63 0.16
46 8 0.02
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.36
Consensus pattern (43 bp):
CTGTTACCCTACTGCTTAGGGGGTTAAGATCTTCATCTTCGAT
Found at i:104681002 original size:86 final size:86
Alignment explanation
Indices: 104680595--104681145 Score: 350
Period size: 86 Copynumber: 6.3 Consensus size: 86
104680585 AATTTCCAGC
* * * * * * *
104680595 CTGTTACCCTACTACTTAGGGGTTTAAGGTCCATCATCTTCGATCTATTTCCCAACTGCTTAAGG
1 CTGTTACCCTACTGCTTAGGGGGTTAA-GACCTTCATCTTCGATCTGTTTCCCTACTGCTTAGGG
** ** * *
104680660 GGTTAAGATCTGTAAATTCAAC
65 GGTTAAGATCTACATCTTCGAT
* ** * * *
104680682 CTGTTACCCTACTGGTTA-GGGGTTAAGATTTGTAAATCTTC-AGCCTGTTACCCTAACTGCTTA
1 CTGTTACCCTACTGCTTAGGGGGTTAAGACCT-T-CATCTTCGA-TCTGTTTCCCT-ACTGCTTA
* * * * ** ** *
104680745 GGGGTTTATGGTTTGTAAATTCG-G
62 GGGGGTTAAGATCTACATCTTCGAT
* *
104680769 CTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGG
1 C-TGTTACCCTACTGCTTAGGGGGTT-AAGACCTTCATCTTCGATCTGTTTCCCTACTGCTTAGG
* * *
104680834 GGGTTAAGATTTGTAAATCTTC-AGC
64 GGGTTAAGA--TCTACATCTTCGA-T
* * * * * *
104680859 CTGTTACCCTACTGCTTA-GGGGTTAAGGCTTGTAAAT-TTGGCT-TGTTACCCTACTGCTTA-G
1 CTGTTACCCTACTGCTTAGGGGGTTAAGACCT-T-CATCTTCGATCTGTTTCCCTACTGCTTAGG
* *
104680920 GGGTTAA-AGCCCATCATCTTCGAT
64 GGGTTAAGA-TCTA-CATCTTCGAT
* * * *
104680944 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTTCATCTTTGATCTGTTTCCCTACTGCTTAGGGA
1 CTGTTACCCTACTGCTTAGGGGGTTAAGACCTTCATCTTCGATCTGTTTCCCTACTGCTTAGGGG
* * * *
104681009 GATAAGATCTGCA-ATTCGGT
66 GTTAAGATCTACATCTTCGAT
* * * *
104681029 CTGTTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGG
1 CTGTTACCCTACTGCTTAGGGGGTTAAGA-CCTTCATCTTCGATCTGTTTCCCTACTGCTTAGGG
* *
104681094 GGTTAAGATCTGTAAATCTTC-AGC
65 GGTTAAGATC--TACATCTTCGA-T
* *
104681118 CTGTTACCCTATTGCTTAGGGGCTTAAG
1 CTGTTACCCTACTGCTTAGGGGGTTAAG
104681146 GCTTGTGAAT
Statistics
Matches: 356, Mismatches: 82, Indels: 50
0.73 0.17 0.10
Matches are distributed among these distances:
84 3 0.01
85 60 0.17
86 86 0.24
87 73 0.21
88 70 0.20
89 60 0.17
90 4 0.01
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.36
Consensus pattern (86 bp):
CTGTTACCCTACTGCTTAGGGGGTTAAGACCTTCATCTTCGATCTGTTTCCCTACTGCTTAGGGG
GTTAAGATCTACATCTTCGAT
Found at i:104681315 original size:66 final size:66
Alignment explanation
Indices: 104681209--104681335 Score: 227
Period size: 66 Copynumber: 1.9 Consensus size: 66
104681199 TCTATGCTTA
* *
104681209 TGTCAAATGATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTATGAAT
1 TGTCAAATAATTAGGATGCTATAATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTATGAAT
104681274 G
66 G
*
104681275 TGTCAAATAATTAGGATGCTATAATTGAAATGAATCAAATGCTCCTAACTAGATGTGTTAT
1 TGTCAAATAATTAGGATGCTATAATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTAT
104681336 TATATGAATG
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 58 1.00
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (66 bp):
TGTCAAATAATTAGGATGCTATAATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTATGAAT
G
Found at i:104682495 original size:10 final size:10
Alignment explanation
Indices: 104682482--104682518 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
104682472 TTTTTTAGAA
104682482 TTTTTTTGTT
1 TTTTTTTGTT
*
104682492 TTTTTTTGTG
1 TTTTTTTGTT
*
104682502 TTTTTGTGTT
1 TTTTTTTGTT
104682512 TTTTTTT
1 TTTTTTT
104682519 TTGCCTTTGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (10 bp):
TTTTTTTGTT
Found at i:104682495 original size:20 final size:20
Alignment explanation
Indices: 104682470--104682517 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
104682460 TTTCCGCTTT
*
104682470 TTTTTTTTAGAATTTTTTTG
1 TTTTTTTTAGAATTTTTGTG
* **
104682490 TTTTTTTTTGTGTTTTTGTG
1 TTTTTTTTAGAATTTTTGTG
104682510 TTTTTTTT
1 TTTTTTTT
104682518 TTTGCCTTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.06, C:0.00, G:0.12, T:0.81
Consensus pattern (20 bp):
TTTTTTTTAGAATTTTTGTG
Found at i:104682527 original size:6 final size:6
Alignment explanation
Indices: 104682518--104682547 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
104682508 TGTTTTTTTT
104682518 TTTGCC TTTGCC TTTGCC TTTGCC TTTGCC
1 TTTGCC TTTGCC TTTGCC TTTGCC TTTGCC
104682548 ATATAACGCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.17, T:0.50
Consensus pattern (6 bp):
TTTGCC
Found at i:104682527 original size:20 final size:20
Alignment explanation
Indices: 104682488--104682527 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
104682478 AGAATTTTTT
**
104682488 TGTTTTTTTTTGTGTTTTTG
1 TGTTTTTTTTTGTGCCTTTG
*
104682508 TGTTTTTTTTTTTGCCTTTG
1 TGTTTTTTTTTGTGCCTTTG
104682528 CCTTTGCCTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.00, C:0.05, G:0.17, T:0.78
Consensus pattern (20 bp):
TGTTTTTTTTTGTGCCTTTG
Found at i:104685346 original size:19 final size:20
Alignment explanation
Indices: 104685322--104685368 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
104685312 AGTGAAAGTT
104685322 TAATGCAAATGT-TGCAATG
1 TAATGCAAATGTATGCAATG
*
104685341 TAATGCAAATGTATGGAATG
1 TAATGCAAATGTATGCAATG
104685361 -AATGCAAA
1 TAATGCAAA
104685369 AGAAAGGAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.43, C:0.09, G:0.21, T:0.28
Consensus pattern (20 bp):
TAATGCAAATGTATGCAATG
Found at i:104687811 original size:2 final size:2
Alignment explanation
Indices: 104687804--104687838 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
104687794 ACAATAATAC
*
104687804 TA TA TA TA -A TA TA TA TA TA TA TA TA TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
104687839 ATAGAAATAC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:104687955 original size:12 final size:12
Alignment explanation
Indices: 104687933--104687975 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
104687923 AATAAAAAAC
104687933 AATACTATATATA
1 AATA-TATATATA
104687946 AATATATATATA
1 AATATATATATA
* * *
104687958 TATATACATAAA
1 AATATATATATA
104687970 AATATA
1 AATATA
104687976 CACTAATATA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
12 22 0.85
13 4 0.15
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (12 bp):
AATATATATATA
Found at i:104688213 original size:3 final size:3
Alignment explanation
Indices: 104688200--104688286 Score: 60
Period size: 3 Copynumber: 29.0 Consensus size: 3
104688190 GAGGGCATAT
104688200 ATA AT- ATA ATA ATA AT- ATAA ATA ATA A-A TATA CATGA GA-A ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A -ATA ATA
* *
104688243 ATA ATA ATA AT- ATAA ATA ATA GTA AAA ATA A-A ATA ATA ATA ATA
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
104688287 CAAAGCTCTC
Statistics
Matches: 68, Mismatches: 6, Indels: 20
0.72 0.06 0.21
Matches are distributed among these distances:
2 10 0.15
3 49 0.72
4 7 0.10
5 2 0.03
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:104688242 original size:29 final size:26
Alignment explanation
Indices: 104688210--104688286 Score: 77
Period size: 29 Copynumber: 2.8 Consensus size: 26
104688200 ATAATATAAT
104688210 AATAATATAAATAATAAATATACATGAG-A
1 AATAATA-AAATAATAAA-ATA-AT-AGTA
104688239 AATAATAATAATAATATAAATAATAGTA
1 AATAATAA-AATAATA-AAATAATAGTA
104688267 AA-AATAAAATAATAATAATA
1 AATAATAAAATAATAA-AATA
104688287 CAAAGCTCTC
Statistics
Matches: 44, Mismatches: 0, Indels: 11
0.80 0.00 0.20
Matches are distributed among these distances:
25 1 0.02
26 11 0.25
27 7 0.16
28 6 0.14
29 17 0.39
30 2 0.05
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (26 bp):
AATAATAAAATAATAAAATAATAGTA
Found at i:104688281 original size:38 final size:39
Alignment explanation
Indices: 104688200--104688286 Score: 108
Period size: 38 Copynumber: 2.3 Consensus size: 39
104688190 GAGGGCATAT
* * * *
104688200 ATAAT-ATAATAATAATATAAATAATAAATATACATGAG
1 ATAATAATAATAATAATATAAATAATAAATAAAAATAAA
*
104688238 A-AATAATAATAATAATATAAATAAT-AGTAAAAATAAA
1 ATAATAATAATAATAATATAAATAATAAATAAAAATAAA
104688275 ATAATAATAATA
1 ATAATAATAATA
104688287 CAAAGCTCTC
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
37 11 0.26
38 31 0.74
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (39 bp):
ATAATAATAATAATAATATAAATAATAAATAAAAATAAA
Found at i:104688643 original size:22 final size:23
Alignment explanation
Indices: 104688615--104688665 Score: 79
Period size: 21 Copynumber: 2.3 Consensus size: 23
104688605 TAACCTTCTT
104688615 TCCAAAAAAACAAAAAAA-CACC
1 TCCAAAAAAACAAAAAAACCACC
*
104688637 TCC-AAAAAACAAAAAAACCTCC
1 TCCAAAAAAACAAAAAAACCACC
104688659 TCCAAAA
1 TCCAAAA
104688666 CAAAGAACAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 14 0.54
22 9 0.35
23 3 0.12
ACGTcount: A:0.63, C:0.29, G:0.00, T:0.08
Consensus pattern (23 bp):
TCCAAAAAAACAAAAAAACCACC
Found at i:104688688 original size:23 final size:20
Alignment explanation
Indices: 104688621--104688688 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 20
104688611 TCTTTCCAAA
*
104688621 AAAACAAAAAAA-CACCTCC
1 AAAACAAAAAAACCTCCTCC
104688640 AAAAAACAAAAAAACCTCCTCC
1 --AAAACAAAAAAACCTCCTCC
*
104688662 AAAACAAAGAACAATCCTTCTCC
1 AAAACAAA-AA-AA-CCTCCTCC
104688685 AAAA
1 AAAA
104688689 AAACCAAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
20 8 0.20
21 14 0.34
22 8 0.20
23 11 0.27
ACGTcount: A:0.59, C:0.29, G:0.01, T:0.10
Consensus pattern (20 bp):
AAAACAAAAAAACCTCCTCC
Found at i:104689215 original size:17 final size:16
Alignment explanation
Indices: 104689174--104689218 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
104689164 ATTTTTTACA
104689174 ATAATTAATAT-AATTT
1 ATAA-TAATATAAATTT
104689190 A-AA-AATATAAATTAT
1 ATAATAATATAAATT-T
104689205 ATAATAATATAAAT
1 ATAATAATATAAAT
104689219 ACAATTTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
13 5 0.20
14 4 0.16
15 4 0.16
16 3 0.12
17 9 0.36
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
ATAATAATATAAATTT
Found at i:104692716 original size:19 final size:19
Alignment explanation
Indices: 104692700--104692750 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 19
104692690 ACCTGAACTC
104692700 TAAACCTAAACCCGAACCT
1 TAAACCTAAACCCGAACCT
* *
104692719 TAAACCTTAACCCTTAAACCT
1 TAAACCTAAACCC--GAACCT
104692740 TAAACTCTAAA
1 TAAAC-CTAAA
104692751 ACTAGACCCC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
19 12 0.46
21 10 0.38
22 4 0.15
ACGTcount: A:0.43, C:0.31, G:0.02, T:0.24
Consensus pattern (19 bp):
TAAACCTAAACCCGAACCT
Found at i:104692726 original size:7 final size:7
Alignment explanation
Indices: 104692714--104692744 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
104692704 CCTAAACCCG
104692714 AACCTTA
1 AACCTTA
104692721 AACCTTA
1 AACCTTA
*
104692728 ACCCTTA
1 AACCTTA
104692735 AACCTTA
1 AACCTTA
104692742 AAC
1 AAC
104692745 TCTAAAACTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (7 bp):
AACCTTA
Found at i:104693023 original size:39 final size:39
Alignment explanation
Indices: 104692947--104693025 Score: 106
Period size: 39 Copynumber: 2.0 Consensus size: 39
104692937 AATAAATATA
* *
104692947 ACTAGATAAATTAAAAATAATAAAAATTTAAACTCTATC
1 ACTAAATAAATTAAAAATAATAAAAATCTAAACTCTATC
**
104692986 ACTAAATAAA-TATAAAATAATAAAAATCTAATTTCTATC
1 ACTAAATAAATTA-AAAATAATAAAAATCTAAACTCTATC
104693025 A
1 A
104693026 ACTCTTTGAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
38 2 0.06
39 33 0.94
ACGTcount: A:0.57, C:0.10, G:0.01, T:0.32
Consensus pattern (39 bp):
ACTAAATAAATTAAAAATAATAAAAATCTAAACTCTATC
Found at i:104693334 original size:22 final size:22
Alignment explanation
Indices: 104693286--104693336 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
104693276 CATTTTATTT
*
104693286 TATATA-TTTTAATTTATTAAA
1 TATATATTTTTAAATTATTAAA
104693307 TAATATATTTTTATAATT-TTAAA
1 T-ATATATTTTTA-AATTATTAAA
104693330 TATATAT
1 TATATAT
104693337 ATATATATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 1 0.04
22 11 0.42
23 11 0.42
24 3 0.12
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TATATATTTTTAAATTATTAAA
Found at i:104693336 original size:24 final size:24
Alignment explanation
Indices: 104693286--104693338 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
104693276 CATTTTATTT
*
104693286 TATATA-TTTTAATTTATTAAATA
1 TATATATTTTTAAATTATTAAATA
104693309 -ATATATTTTTATAATT-TTAAATA
1 TATATATTTTTA-AATTATTAAATA
104693332 TATATAT
1 TATATAT
104693339 ATATATATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
22 5 0.19
23 12 0.46
24 9 0.35
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
TATATATTTTTAAATTATTAAATA
Found at i:104695128 original size:6 final size:6
Alignment explanation
Indices: 104695109--104695153 Score: 54
Period size: 6 Copynumber: 7.3 Consensus size: 6
104695099 TTTAAAAAAA
** *
104695109 ATAATT ATTAATT ATAATT ATAATT ATTTTT AAAATT ATAATT AT
1 ATAATT A-TAATT ATAATT ATAATT ATAATT ATAATT ATAATT AT
104695154 TTTTAAATAT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
6 26 0.81
7 6 0.19
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (6 bp):
ATAATT
Found at i:104695147 original size:18 final size:18
Alignment explanation
Indices: 104695092--104695160 Score: 84
Period size: 18 Copynumber: 3.7 Consensus size: 18
104695082 GCATTGCTTA
**
104695092 AATTATTTTTAAAAAAAAT
1 AATTATTTTT-AAAATTAT
* *
104695111 AATTATTAATTATAATTAT
1 AATTATT-TTTAAAATTAT
104695130 AATTATTTTTAAAATTAT
1 AATTATTTTTAAAATTAT
104695148 AATTATTTTTAAA
1 AATTATTTTTAAA
104695161 TATGTATTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
18 22 0.51
19 19 0.44
20 2 0.05
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
AATTATTTTTAAAATTAT
Found at i:104703236 original size:2 final size:2
Alignment explanation
Indices: 104703229--104703265 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
104703219 TAACTGCTTT
104703229 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
104703266 TATTTATAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:104719799 original size:38 final size:38
Alignment explanation
Indices: 104719725--104719799 Score: 87
Period size: 38 Copynumber: 2.0 Consensus size: 38
104719715 ATGTTATCCT
* **
104719725 ACTACATCAATTGGATTAATTCAACCAAGAGTAAATGC
1 ACTACATCAATTGAATTAATTCAACCAAGACCAAATGC
* * * *
104719763 ACTACATTAATTGAATTTATTTAACCAATACCAAATG
1 ACTACATCAATTGAATTAATTCAACCAAGACCAAATG
104719800 TTACATCACA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
38 30 1.00
ACGTcount: A:0.43, C:0.17, G:0.09, T:0.31
Consensus pattern (38 bp):
ACTACATCAATTGAATTAATTCAACCAAGACCAAATGC
Found at i:104719859 original size:62 final size:62
Alignment explanation
Indices: 104719762--104719881 Score: 231
Period size: 62 Copynumber: 1.9 Consensus size: 62
104719752 AGAGTAAATG
104719762 CACTACATTAATTGAATTTATTTAACCAATACCAAATGTTACATCACAATATCAATTGAATC
1 CACTACATTAATTGAATTTATTTAACCAATACCAAATGTTACATCACAATATCAATTGAATC
*
104719824 CACTACATTAATTGGATTTATTTAACCAATACCAAATGTTACATCACAATATCAATTG
1 CACTACATTAATTGAATTTATTTAACCAATACCAAATGTTACATCACAATATCAATTG
104719882 GATTATAATA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 57 1.00
ACGTcount: A:0.41, C:0.19, G:0.06, T:0.34
Consensus pattern (62 bp):
CACTACATTAATTGAATTTATTTAACCAATACCAAATGTTACATCACAATATCAATTGAATC
Found at i:104725045 original size:32 final size:32
Alignment explanation
Indices: 104725004--104725067 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
104724994 CCTACGCTTT
*
104725004 CGCCTCCGTACTCCTCACGCCAAACGCCAGCA
1 CGCCTCCGTACCCCTCACGCCAAACGCCAGCA
*
104725036 CGCCTCCGTACCCCTCACGCCAAGCGCCAGCA
1 CGCCTCCGTACCCCTCACGCCAAACGCCAGCA
104725068 TGACCCCCGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.20, C:0.52, G:0.17, T:0.11
Consensus pattern (32 bp):
CGCCTCCGTACCCCTCACGCCAAACGCCAGCA
Found at i:104726125 original size:13 final size:14
Alignment explanation
Indices: 104726107--104726135 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
104726097 TTAGATTCAT
104726107 TTCATGTTT-TTTA
1 TTCATGTTTATTTA
104726120 TTCATGTTTATTTA
1 TTCATGTTTATTTA
104726134 TT
1 TT
104726136 TGTATAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.17, C:0.07, G:0.07, T:0.69
Consensus pattern (14 bp):
TTCATGTTTATTTA
Found at i:104726275 original size:2 final size:2
Alignment explanation
Indices: 104726268--104726293 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
104726258 ACACAATTAC
104726268 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
104726294 GCGCTTTGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:104727641 original size:131 final size:131
Alignment explanation
Indices: 104727467--104727827 Score: 456
Period size: 131 Copynumber: 2.7 Consensus size: 131
104727457 TTCATTCAAC
* * *
104727467 AATTCTTCAAAACGAAGACGAGATTCGATGTTCGGCAATTCGCGGAATCGTGCCCTAACGTGTTG
1 AATTCTTCAAAACGAAGACGAGATTCGATATT-TGCAATTCGCGGAATCGTGCCCTAACGTGCTG
* * * *
104727532 GGTTGCAATTTCGCGCTTGCTCAAAATAATCGAATATCACTTCAAAATTTCATTCATGTCTT-TT
65 GGTTGCAATTTCACGTTTGCTCAAAATAATCGAATATCACTTCAAAATTTCATTCATATCTTCTA
104727596 AA
130 AA
* *
104727598 AATTCTTCAAAACGAAGACGAGATTCGATATTTAGTAATTCGCGGAATCGTGCCCTAACGCGCTG
1 AATTCTTCAAAACGAAGACGAGATTCGATATTT-GCAATTCGCGGAATCGTGCCCTAACGTGCTG
* * *
104727663 GGTTGCAATTTCACGTTTGCTCAAAATAATCGAGTATCCCTTCAAGATTTCATTCATATCTTCTA
65 GGTTGCAATTTCACGTTTGCTCAAAATAATCGAATATCACTTCAAAATTTCATTCATATCTTCTA
104727728 AA
130 AA
* * * * * * * * *
104727730 AATTATTTAAAACGAAGGCAATATTCGACATTTGACAATTCG-AGAATCATGCCCTATCGTGCTG
1 AATTCTTCAAAACGAAGACGAGATTCGATATTTG-CAATTCGCGGAATCGTGCCCTAACGTGCTG
** * *
104727794 GGTTGTGATTTCTCGTTTGCTCAAAATGATCGAA
65 GGTTGCAATTTCACGTTTGCTCAAAATAATCGAA
104727828 CATTCCTTTA
Statistics
Matches: 199, Mismatches: 28, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
131 163 0.82
132 36 0.18
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (131 bp):
AATTCTTCAAAACGAAGACGAGATTCGATATTTGCAATTCGCGGAATCGTGCCCTAACGTGCTGG
GTTGCAATTTCACGTTTGCTCAAAATAATCGAATATCACTTCAAAATTTCATTCATATCTTCTAA
A
Found at i:104727862 original size:131 final size:133
Alignment explanation
Indices: 104727502--104727932 Score: 349
Period size: 131 Copynumber: 3.3 Consensus size: 133
104727492 CGATGTTCGG
* * * * * * *
104727502 CAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGCGCTTGCTCAAAATAATCGAAT
1 CAATTCG-AGAATCATGCCCTATCGTGCTGGGTTGCAATTTCACGTTTGCTCAAAATAATCGAAC
* * * * * * * * * * *
104727567 ATCACTTCAAAATTTCATTCATGTCTT-T--TAAAATTCTTCAAAACGAAGACGAGATTCGATAT
65 ATCCCTTCAACATTTCACTCATATCTTATAAAAAAATACTTAAAAACGAAGACAATATTCAACAT
104727629 TT-A
130 TTGA
* * * * * *
104727632 GTAATTCGCGGAATCGTGCCCTAACGCGCTGGGTTGCAATTTCACGTTTGCTCAAAATAATCGAG
1 -CAATTCG-AGAATCATGCCCTATCGTGCTGGGTTGCAATTTCACGTTTGCTCAAAATAATCGAA
* * * * * * * *
104727697 TATCCCTTCAAGATTTCATTCATATCTTCT-AAAAATTA-TTTAAAACGAAGGCAATATTCGACA
64 CATCCCTTCAACATTTCACTCATATCTTATAAAAAAATACTTAAAAACGAAGACAATATTCAACA
104727760 TTTGA
129 TTTGA
** * *
104727765 CAATTCGAGAATCATGCCCTATCGTGCTGGGTTGTGATTTCTCGTTTGCTCAAAATGATCGAACA
1 CAATTCGAGAATCATGCCCTATCGTGCTGGGTTGCAATTTCACGTTTGCTCAAAATAATCGAACA
* * * * *
104727830 TTCCTT-TACATTCTCACTCATGT-TTATAAAAAAAATACTTAAAAACGAAGACGATATTCAATA
66 TCCCTTCAACATT-TCACTCATATCTTAT-AAAAAAATACTTAAAAACGAAGACAATATTCAACA
*
104727893 TTTGG
129 TTTGA
* *
104727898 CGATTTGAGAATCGA-GCCCTATCGTGCTGGGTTGC
1 CAATTCGAGAATC-ATGCCCTATCGTGCTGGGTTGC
104727933 GCTTTTTCAT
Statistics
Matches: 248, Mismatches: 44, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
130 7 0.03
131 144 0.58
132 37 0.15
133 59 0.24
134 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (133 bp):
CAATTCGAGAATCATGCCCTATCGTGCTGGGTTGCAATTTCACGTTTGCTCAAAATAATCGAACA
TCCCTTCAACATTTCACTCATATCTTATAAAAAAATACTTAAAAACGAAGACAATATTCAACATT
TGA
Found at i:104729694 original size:18 final size:18
Alignment explanation
Indices: 104729671--104729706 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
104729661 TGAAGTAGGA
104729671 GTCTTGAACCCATCGTTG
1 GTCTTGAACCCATCGTTG
104729689 GTCTTGAACCCATCGTTG
1 GTCTTGAACCCATCGTTG
104729707 TCGTTTTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.28, G:0.22, T:0.33
Consensus pattern (18 bp):
GTCTTGAACCCATCGTTG
Found at i:104745114 original size:3 final size:3
Alignment explanation
Indices: 104745102--104745153 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
104745092 GTTGTTGTTG
*
104745102 TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
104745150 TTA T
1 TTA T
104745154 GTAATCACCG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:104745626 original size:21 final size:21
Alignment explanation
Indices: 104745602--104745642 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
104745592 TATGGTTAGT
*
104745602 CAAGTGGTTAGTTTTTGTTAC
1 CAAGTGGTTAGTGTTTGTTAC
104745623 CAAGTGGTTAGTGTTTGTTA
1 CAAGTGGTTAGTGTTTGTTA
104745643 TCACTCACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.20, C:0.07, G:0.27, T:0.46
Consensus pattern (21 bp):
CAAGTGGTTAGTGTTTGTTAC
Found at i:104745840 original size:41 final size:42
Alignment explanation
Indices: 104745782--104745889 Score: 184
Period size: 41 Copynumber: 2.6 Consensus size: 42
104745772 ACGAAAAGGA
104745782 AAGAAGGGAGCAGCACAGGGTCCTTAGAGATACTTGCAGGTG
1 AAGAAGGGAGCAGCACAGGGTCCTTAGAGATACTTGCAGGTG
104745824 AAGAA-GGAGCAGCACAGGGTCCTTAGAGATACTTGCAGGTG
1 AAGAAGGGAGCAGCACAGGGTCCTTAGAGATACTTGCAGGTG
*
104745865 AAGAATGGAGCAGCAC-GTGGTCCTT
1 AAGAAGGGAGCAGCACAG-GGTCCTT
104745890 TTCAAATAAA
Statistics
Matches: 64, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
41 42 0.66
42 22 0.34
ACGTcount: A:0.31, C:0.18, G:0.34, T:0.18
Consensus pattern (42 bp):
AAGAAGGGAGCAGCACAGGGTCCTTAGAGATACTTGCAGGTG
Found at i:104748238 original size:3 final size:3
Alignment explanation
Indices: 104748230--104748275 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
104748220 ATGTATTAAG
104748230 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
104748276 GTAATCTCCG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:104748739 original size:21 final size:21
Alignment explanation
Indices: 104748715--104748755 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
104748705 TATGGTTAGT
104748715 CAAGTGGTTAGTATTTGTTAC
1 CAAGTGGTTAGTATTTGTTAC
*
104748736 CAAGTGGTTAGTGTTTGTTA
1 CAAGTGGTTAGTATTTGTTA
104748756 TCACTCACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.22, C:0.07, G:0.27, T:0.44
Consensus pattern (21 bp):
CAAGTGGTTAGTATTTGTTAC
Found at i:104751391 original size:3 final size:3
Alignment explanation
Indices: 104751383--104751457 Score: 132
Period size: 3 Copynumber: 25.0 Consensus size: 3
104751373 ATGTGAAATG
* *
104751383 TAT TAT TAT TAT TCT TAT CAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
104751431 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
104751458 GTAATCTCCG
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 68 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:104751879 original size:21 final size:21
Alignment explanation
Indices: 104751849--104751898 Score: 82
Period size: 21 Copynumber: 2.3 Consensus size: 21
104751839 CTGGTATATG
104751849 GTTATTCAAGTGGTTAGTATTT
1 GTTA-TCAAGTGGTTAGTATTT
*
104751871 GTTATCAAGTGGTTAGTGTTT
1 GTTATCAAGTGGTTAGTATTT
104751892 GTTATCA
1 GTTATCA
104751899 CTCATTAGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.22, C:0.06, G:0.24, T:0.48
Consensus pattern (21 bp):
GTTATCAAGTGGTTAGTATTT
Found at i:104752143 original size:42 final size:42
Alignment explanation
Indices: 104752035--104752131 Score: 133
Period size: 42 Copynumber: 2.3 Consensus size: 42
104752025 ACGAAAAGGA
* *
104752035 AAGAAGGGAGCAGCAC-AGTGTCCTTAGATATACTTGCAAGTG
1 AAGAAGGGAGCAGCACAAG-GTCCTTAGAGAAACTTGCAAGTG
* *
104752077 AAGAAGGGAGCAGCCCAAGGTCCTTAGAGAAACTTGCAGGTG
1 AAGAAGGGAGCAGCACAAGGTCCTTAGAGAAACTTGCAAGTG
*
104752119 AAGAATGGAGCAG
1 AAGAAGGGAGCAG
104752132 TATGTGGTCC
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
42 47 0.96
43 2 0.04
ACGTcount: A:0.35, C:0.16, G:0.32, T:0.16
Consensus pattern (42 bp):
AAGAAGGGAGCAGCACAAGGTCCTTAGAGAAACTTGCAAGTG
Found at i:104755865 original size:155 final size:155
Alignment explanation
Indices: 104755630--104756094 Score: 840
Period size: 155 Copynumber: 3.0 Consensus size: 155
104755620 GTTTATTCCT
104755630 GGTTGGGTTGGGTTCATTGATTTGTTGCTGGGATTATTTTGATTGTGTGTGAGTTGTGTAATGGG
1 GGTTGGGTTGGGTTCATTGATTTGTTGCTGGGATTATTTTGATTGTGTGTGAGTTGTGTAATGGG
*
104755695 GTTTTTGGCTGCGGGTCATCTTGAAGGTGGCCTTTTTTCCTGGTTGTTTGCTGGGTTTATTTTCT
66 GTTTTTGGTTGCGGGTCATCTTGAAGGTGGCCTTTTTTCCTGGTTGTTTGCTGGGTTTATTTTCT
*
104755760 GGTTATCATGCAGAGGAGATCATGG
131 GGTTATCGTGCAGAGGAGATCATGG
* *
104755785 GGTTGGTTTGGGTTCATTGATTTGTTGCTGGGATTATTTTGATTGTGTATGAGTTGTGTAATGGG
1 GGTTGGGTTGGGTTCATTGATTTGTTGCTGGGATTATTTTGATTGTGTGTGAGTTGTGTAATGGG
* *
104755850 GTTTTTGGTTGCGGGTCATCTTGAATGTGGCCTTTTTTCCTGGTTGTTTGGTGGGTTTATTTTCT
66 GTTTTTGGTTGCGGGTCATCTTGAAGGTGGCCTTTTTTCCTGGTTGTTTGCTGGGTTTATTTTCT
104755915 GGTTATCGTGCAGAGGAGATCATGG
131 GGTTATCGTGCAGAGGAGATCATGG
** *
104755940 GGTTGGGTTGGGTTCATTGATTTGTTAATGGGATTATTTTGATTTTGTGTGAGTTGTGTAATGGG
1 GGTTGGGTTGGGTTCATTGATTTGTTGCTGGGATTATTTTGATTGTGTGTGAGTTGTGTAATGGG
*
104756005 GTTTTTGGTTGCGGGTCATCTTGAGGGTGGCCTTTTTTCCTGGTTGTTTGCTGGGTTTATTTTCT
66 GTTTTTGGTTGCGGGTCATCTTGAAGGTGGCCTTTTTTCCTGGTTGTTTGCTGGGTTTATTTTCT
104756070 GGTTATCGTGCAGAGGAGATCATGG
131 GGTTATCGTGCAGAGGAGATCATGG
104756095 AAAGTGCAAT
Statistics
Matches: 296, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
155 296 1.00
ACGTcount: A:0.12, C:0.09, G:0.34, T:0.45
Consensus pattern (155 bp):
GGTTGGGTTGGGTTCATTGATTTGTTGCTGGGATTATTTTGATTGTGTGTGAGTTGTGTAATGGG
GTTTTTGGTTGCGGGTCATCTTGAAGGTGGCCTTTTTTCCTGGTTGTTTGCTGGGTTTATTTTCT
GGTTATCGTGCAGAGGAGATCATGG
Found at i:104756818 original size:15 final size:15
Alignment explanation
Indices: 104756786--104756814 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
104756776 CATGTGTCAC
104756786 ATTTTTTAAATATTT
1 ATTTTTTAAATATTT
104756801 ATTTTTT-AATATTT
1 ATTTTTTAAATATTT
104756815 TATTATACCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTTTTTAAATATTT
Found at i:104757435 original size:8 final size:8
Alignment explanation
Indices: 104757422--104757459 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
104757412 TAAAAAAATG
104757422 TAATTTTA
1 TAATTTTA
104757430 TAATTTTAA
1 TAATTTT-A
104757439 TAA-TTTA
1 TAATTTTA
104757446 -AATTTTA
1 TAATTTTA
104757453 TAATTTT
1 TAATTTT
104757460 GAAAGGATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
6 2 0.07
7 5 0.19
8 16 0.59
9 4 0.15
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
TAATTTTA
Found at i:104758154 original size:17 final size:18
Alignment explanation
Indices: 104758127--104758165 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
104758117 AAATATTTAA
*
104758127 TTATAATTTTTTGGATTT
1 TTATAATTTTTTAGATTT
*
104758145 TTAT-ATTTTTTATATTT
1 TTATAATTTTTTAGATTT
104758162 TTAT
1 TTAT
104758166 TTATATATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (18 bp):
TTATAATTTTTTAGATTT
Found at i:104758790 original size:15 final size:14
Alignment explanation
Indices: 104758741--104758790 Score: 57
Period size: 14 Copynumber: 3.5 Consensus size: 14
104758731 ATTTAAACAC
104758741 TAAAAAA-TATTTT
1 TAAAAAATTATTTT
*
104758754 AAAAAAAATTATTTT
1 -TAAAAAATTATTTT
*
104758769 TCAAAAATTATTTT
1 TAAAAAATTATTTT
104758783 TAATAAAA
1 TAA-AAAA
104758791 CATACATAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
14 20 0.67
15 10 0.33
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (14 bp):
TAAAAAATTATTTT
Found at i:104760259 original size:20 final size:20
Alignment explanation
Indices: 104760236--104760275 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
104760226 TGAAATTTTA
104760236 AAAGATAAAT-ACAAATAAAT
1 AAAGATAAATGA-AAATAAAT
104760256 AAAGATAAATGAAAATAAAT
1 AAAGATAAATGAAAATAAAT
104760276 CCTAGAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.70, C:0.03, G:0.07, T:0.20
Consensus pattern (20 bp):
AAAGATAAATGAAAATAAAT
Found at i:104761917 original size:6 final size:6
Alignment explanation
Indices: 104761883--104761928 Score: 51
Period size: 6 Copynumber: 7.5 Consensus size: 6
104761873 ATCTGAAAAT
104761883 AATAAA TAAT-AA AATAATA AGAT-AA AATAAA AATAAA AATAAA AAT
1 AATAAA -AATAAA AATAA-A A-ATAAA AATAAA AATAAA AATAAA AAT
104761929 TGGGTTGTCT
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
5 5 0.14
6 22 0.63
7 6 0.17
8 2 0.06
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (6 bp):
AATAAA
Found at i:104767640 original size:17 final size:17
Alignment explanation
Indices: 104767618--104767650 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
104767608 TAAAATGGAA
104767618 AAAATA-AACAAAGTTTG
1 AAAATAGAA-AAAGTTTG
104767635 AAAATAGAAAAAGTTT
1 AAAATAGAAAAAGTTT
104767651 CTTATGTGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.61, C:0.03, G:0.12, T:0.24
Consensus pattern (17 bp):
AAAATAGAAAAAGTTTG
Found at i:104768335 original size:10 final size:10
Alignment explanation
Indices: 104768316--104768375 Score: 79
Period size: 10 Copynumber: 6.0 Consensus size: 10
104768306 TGAAATTCTA
104768316 AAAGATAAAT
1 AAAGATAAAT
104768326 ACAA-ATAAAT
1 A-AAGATAAAT
*
104768336 AAAGATAATT
1 AAAGATAAAT
104768346 AAAGATAAAT
1 AAAGATAAAT
104768356 AAAGATAAAT
1 AAAGATAAAT
104768366 GAAA-ATAAAT
1 -AAAGATAAAT
104768376 CCTAAAATTA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
9 2 0.04
10 38 0.84
11 5 0.11
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:104775105 original size:29 final size:27
Alignment explanation
Indices: 104775073--104775188 Score: 96
Period size: 27 Copynumber: 4.2 Consensus size: 27
104775063 AATAAAAGGT
*
104775073 ATATACATAGTATTATAAATATGTACATA
1 ATATA-ATAGTATTA-AAATATATACATA
*
104775102 ATATAGT--TATTAAAAAATATATACATA
1 ATATAATAGTATT--AAAATATATACATA
* *
104775129 AAATAATATGT-TTAAAATATATATATA
1 ATATAATA-GTATTAAAATATATACATA
*
104775156 A-ATAATATAGTATTAAAATATATACATG
1 ATAT-A-ATAGTATTAAAATATATACATA
104775184 ATATA
1 ATATA
104775189 TATAAAATAT
Statistics
Matches: 71, Mismatches: 7, Indels: 19
0.73 0.07 0.20
Matches are distributed among these distances:
26 6 0.08
27 34 0.48
28 21 0.30
29 9 0.13
30 1 0.01
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.38
Consensus pattern (27 bp):
ATATAATAGTATTAAAATATATACATA
Found at i:104775133 original size:13 final size:13
Alignment explanation
Indices: 104775115--104775192 Score: 50
Period size: 13 Copynumber: 5.8 Consensus size: 13
104775105 TAGTTATTAA
104775115 AAAATATATACAT
1 AAAATATATACAT
***
104775128 AAAATAATATGTTT
1 AAAAT-ATATACAT
*
104775142 AAAATATATATAT
1 AAAATATATACAT
*
104775155 AAATAATATAGTA-TT
1 -AA-AATATA-TACAT
104775170 AAAATATATACAT
1 AAAATATATACAT
* *
104775183 GATATATATA
1 AAAATATATA
104775193 AAATATAATA
Statistics
Matches: 51, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
12 2 0.04
13 26 0.51
14 14 0.27
15 7 0.14
16 2 0.04
ACGTcount: A:0.56, C:0.03, G:0.04, T:0.37
Consensus pattern (13 bp):
AAAATATATACAT
Found at i:104775226 original size:64 final size:64
Alignment explanation
Indices: 104775120--104775263 Score: 166
Period size: 64 Copynumber: 2.2 Consensus size: 64
104775110 ATTAAAAAAT
* * * * * *
104775120 ATATACATAAAATA-ATATGTTTAAAATATATATATAAATAATATAGTATTAAAATATATACATG
1 ATATATATAAAATATATATATTAAAAAGATATATATAAATAATATA-TATAAAAATATATACATA
** *
104775184 ATATATATAAAATATA-ATATTAAAAAGATATATATACGTAATATATATAAAAATGTATACATA
1 ATATATATAAAATATATATATTAAAAAGATATATATAAATAATATATATAAAAATATATACATA
104775247 ATATAGTATTAAAATAT
1 ATATA-TA-TAAAATAT
104775264 TTACATAATA
Statistics
Matches: 68, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
63 20 0.29
64 39 0.57
65 9 0.13
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.37
Consensus pattern (64 bp):
ATATATATAAAATATATATATTAAAAAGATATATATAAATAATATATATAAAAATATATACATA
Found at i:104775357 original size:21 final size:20
Alignment explanation
Indices: 104775328--104775381 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
104775318 TAATACTACA
*
104775328 TAAATATATACATATATATAT
1 TAAACATATACATATATA-AT
*
104775349 TAAAGATATATACATATATAAT
1 T-AA-ACATATACATATATAAT
*
104775371 AAAACATATAC
1 TAAACATATAC
104775382 TAATATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
20 7 0.24
21 3 0.10
22 4 0.14
23 15 0.52
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.35
Consensus pattern (20 bp):
TAAACATATACATATATAAT
Found at i:104775498 original size:2 final size:2
Alignment explanation
Indices: 104775478--104775520 Score: 61
Period size: 2 Copynumber: 22.0 Consensus size: 2
104775468 TAGTATTTAA
* *
104775478 AT AT GT AT AC AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
104775519 AT
1 AT
104775521 TAGGAATAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:104775638 original size:3 final size:3
Alignment explanation
Indices: 104775630--104775717 Score: 115
Period size: 3 Copynumber: 29.0 Consensus size: 3
104775620 AAAGATATAC
104775630 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
** * *
104775678 CGA TAA TAA TAA -ATA TAA TAA TAAA TAA TAT TAA AAA TAA
1 TAA TAA TAA TAA TA-A TAA TAA T-AA TAA TAA TAA TAA TAA
104775718 AAAATAGTGA
Statistics
Matches: 74, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
2 1 0.01
3 69 0.93
4 4 0.05
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:104775730 original size:16 final size:16
Alignment explanation
Indices: 104775682--104775733 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 16
104775672 TAATAACGAT
* *
104775682 AATAATAAATA-TAAT
1 AATAAAAAATAGTAAA
* *
104775697 AATAAATAATATTAAA
1 AATAAAAAATAGTAAA
*
104775713 AATAAAAAATAGTGAA
1 AATAAAAAATAGTAAA
104775729 AATAA
1 AATAA
104775734 TATAAAAACC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
15 9 0.30
16 21 0.70
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (16 bp):
AATAAAAAATAGTAAA
Found at i:104776757 original size:19 final size:19
Alignment explanation
Indices: 104776733--104776770 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
104776723 TAGGGGGCTA
104776733 GGGTTTCTGATTTGTTTTG
1 GGGTTTCTGATTTGTTTTG
104776752 GGGTTTCTGATTTGTTTTG
1 GGGTTTCTGATTTGTTTTG
104776771 TGTGATTTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.05, C:0.05, G:0.32, T:0.58
Consensus pattern (19 bp):
GGGTTTCTGATTTGTTTTG
Found at i:104777648 original size:75 final size:75
Alignment explanation
Indices: 104777502--104777911 Score: 628
Period size: 75 Copynumber: 5.5 Consensus size: 75
104777492 TGTGTGACCC
* *
104777502 GAGGCTCAACCCACCTCTTGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATTAAAAATACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAATACCTC
* *
104777566 AGTGTGAATT
66 AGCGTGAACT
*
104777576 GAGGCTCAACTCACCCCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAATACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAATACCTC
104777641 AGCGTGAACT
66 AGCGTGAACT
*
104777651 GAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAATACC-C
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAATACCTC
**
104777715 AAGCGTGTCCT
66 -AGCGTGAACT
* *
104777726 GAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGAAAAACAAAAATTAAAAATACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAATACCTC
**
104777791 AGCGTGTCCT
66 AGCGTGAACT
*
104777801 GAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTTTGAAAAACAGAAATTAAAAATACCT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAAACAGAAATTAAAAATACCT
* *
104777866 CGGCGT-ATCCT
65 CAGCGTGA-ACT
*
104777877 GAGGCTCAAGTCACCTCTCGCAATATGAGTTGATT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
104777912 ATTGGAATAA
Statistics
Matches: 312, Mismatches: 19, Indels: 9
0.92 0.06 0.03
Matches are distributed among these distances:
74 31 0.10
75 211 0.68
76 70 0.22
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (75 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAATACCTC
AGCGTGAACT
Found at i:104778807 original size:50 final size:48
Alignment explanation
Indices: 104778710--104778807 Score: 117
Period size: 50 Copynumber: 2.0 Consensus size: 48
104778700 TCATTAGAAC
* *
104778710 GCCCTTTCGGGTTTTCATCCTAATCTTTTGTGTTAATCAAGACGCCCT
1 GCCCTTTCAGGTTTTCATCCTAATCTTTTGTGTTAATAAAGACGCCCT
* * *
104778758 GCCCTTTTCAGGTTTTCATCTTGATTCCTTTT-TGTTTATAAAGACGCCCT
1 GCCC-TTTCAGGTTTTCATCCT-AAT-CTTTTGTGTTAATAAAGACGCCCT
104778808 TTTTGGGTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
48 4 0.10
49 15 0.36
50 18 0.43
51 5 0.12
ACGTcount: A:0.16, C:0.26, G:0.15, T:0.43
Consensus pattern (48 bp):
GCCCTTTCAGGTTTTCATCCTAATCTTTTGTGTTAATAAAGACGCCCT
Found at i:104792285 original size:29 final size:28
Alignment explanation
Indices: 104792253--104792369 Score: 100
Period size: 27 Copynumber: 4.2 Consensus size: 28
104792243 AATAAAAGGT
* *
104792253 ATATACATAGTATTATAAATATGTACATA
1 ATATA-ATAGTATTAAAAATATATACATA
*
104792282 ATATAGT--TATTAAAAAATATATACATA
1 ATATAATAGTATT-AAAAATATATACATA
* *
104792309 AAATAATATGT-TT-AAAATATATATATA
1 ATATAATA-GTATTAAAAATATATACATA
*
104792336 A-ATAATATAGTATTAAAAATATATACATG
1 ATAT-A-ATAGTATTAAAAATATATACATA
104792365 ATATA
1 ATATA
104792370 TATAAAATAT
Statistics
Matches: 71, Mismatches: 8, Indels: 18
0.73 0.08 0.19
Matches are distributed among these distances:
26 6 0.08
27 35 0.49
28 6 0.08
29 21 0.30
30 3 0.04
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.38
Consensus pattern (28 bp):
ATATAATAGTATTAAAAATATATACATA
Done.