Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 ID=Chr08-JGI_221_v2.0
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: 57128820
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 677448 characters in sequence are not A, C, G, or T
File 169 of 190
Found at i:49291747 original size:21 final size:22
Alignment explanation
Indices: 49291723--49291763 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
49291713 TGGTGCACTG
*
49291723 ATAA-TGTATTCTTTTTATTCC
1 ATAATTGTACTCTTTTTATTCC
49291744 ATAATTGTACTCTTTTTATT
1 ATAATTGTACTCTTTTTATT
49291764 TCGTAAGTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.24, C:0.12, G:0.05, T:0.59
Consensus pattern (22 bp):
ATAATTGTACTCTTTTTATTCC
Found at i:49291824 original size:14 final size:16
Alignment explanation
Indices: 49291800--49291831 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
49291790 GCGTCTCTCT
49291800 TTTTTTAAATATT-TA
1 TTTTTTAAATATTATA
49291815 TTTTTT-AATATTATA
1 TTTTTTAAATATTATA
49291830 TT
1 TT
49291832 ATACCCTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTTTTAAATATTATA
Found at i:49292579 original size:2 final size:2
Alignment explanation
Indices: 49292572--49292596 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
49292562 GGTAAAAATC
49292572 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
49292597 GAGGGATAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:49309746 original size:4 final size:4
Alignment explanation
Indices: 49309734--49309764 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
49309724 TAAAATTAGT
49309734 TAAA T-AA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
49309765 AAAGGATAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
TAAA
Found at i:49310161 original size:31 final size:31
Alignment explanation
Indices: 49310068--49310163 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
49310058 GGCAAATTAC
*
49310068 AAGAGTAATTGAATCCTAATAAAACTCTTTC
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
49310099 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
49310131 AAGAGTAATTGAATCCTAATAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
49310162 AA
1 AA
49310164 ATTATCTAAG
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.46, C:0.14, G:0.09, T:0.31
Consensus pattern (31 bp):
AAGAGTAATTGAATCCTAATAAAACTCTTTA
Found at i:49320064 original size:7 final size:7
Alignment explanation
Indices: 49320052--49320113 Score: 54
Period size: 7 Copynumber: 8.3 Consensus size: 7
49320042 ATAATAAATA
49320052 TTTATTT
1 TTTATTT
49320059 TTTA-TT
1 TTTATTT
49320065 TTTATTT
1 TTTATTT
49320072 TTTAATTT
1 TTT-ATTT
*
49320080 TTAATTT
1 TTTATTT
*
49320087 TAAAATATTT
1 T---TTATTT
49320097 TTTATTTT
1 TTTA-TTT
49320105 TTTATTT
1 TTTATTT
49320112 TT
1 TT
49320114 AAAACAATTT
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
6 6 0.13
7 21 0.47
8 13 0.29
10 5 0.11
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTATTT
Found at i:49320070 original size:13 final size:14
Alignment explanation
Indices: 49320052--49320087 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
49320042 ATAATAAATA
49320052 TTTATTTTTT-ATT
1 TTTATTTTTTAATT
49320065 TTTATTTTTTAATT
1 TTTATTTTTTAATT
49320079 TTTAATTTT
1 TTT-ATTTT
49320088 AAAATATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 10 0.48
14 6 0.29
15 5 0.24
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTATTTTTTAATT
Found at i:49320135 original size:26 final size:25
Alignment explanation
Indices: 49320068--49320136 Score: 84
Period size: 26 Copynumber: 2.7 Consensus size: 25
49320058 TTTTATTTTT
* *
49320068 ATTTTTTAATTTTTAATTTTAAAAT
1 ATTTTTTAATTTTTATTTTTAAAAA
*
49320093 ATTTTTTATTTTTTTATTTTTAAAACA
1 ATTTTTTA-ATTTTTATTTTTAAAA-A
*
49320120 ATTTTTTAATGTTTATT
1 ATTTTTTAATTTTTATT
49320137 AAAAATGGGC
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
25 8 0.22
26 21 0.57
27 8 0.22
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.67
Consensus pattern (25 bp):
ATTTTTTAATTTTTATTTTTAAAAA
Found at i:49323404 original size:216 final size:215
Alignment explanation
Indices: 49323026--49323417 Score: 601
Period size: 216 Copynumber: 1.8 Consensus size: 215
49323016 TGACATGTTA
* *
49323026 AACATCTTGAAATTTTATCATTTGTCATATGCTACACAAATTTTTTCTTTTAAAATAGTCGTATC
1 AACATCTTGAAATTTTATCATTTGTCATATACTACACAAATTCTTTCTTTTAAAATAGTCGTATC
* * * *
49323091 AGTTTCATTATATGAAAATTATAAAAAATTATAACATTAAATAATCAGTTAGGGTGAGTATGAAA
66 AATTTCATTATATGAAAATTATAAAAAATTATAACATTAAATAATCAATTAGCGTGAGTACGAAA
* *
49323156 GAATTGTAATATTAAAAATTGATACCGAAGCCAACATTTTTAATGTAAGTAATCGTATATGAATG
131 GAAGTATAATATTAAAAATTGATACCGAAGCCAACATTTTTAATGTAAGTAATCGTATATGAATG
49323221 GTTTAGAATTTCGACACGTC
196 GTTTAGAATTTCGACACGTC
*
49323241 AACATCTTGAAATTTTATCATTTGTCTTATACTACAC-AATTCTTTCTTTTAAAATAGTCGTATC
1 AACATCTTGAAATTTTATCATTTGTCATATACTACACAAATTCTTTCTTTTAAAATAGTCGTATC
* *
49323305 AA-TTCTATTATATGAAAATTATAAAAAAAATATATAATATTAAGTAATCAATTA-CGTGAGTAC
66 AATTTC-ATTATATGAAAATTAT--AAAAAAT-TATAACATTAAATAATCAATTAGCGTGAGTAC
* **
49323368 GAAAGAAGTATAATATTGAAAATTGATATTGAAGCCAACATTTTTAATGT
127 GAAAGAAGTATAATATTAAAAATTGATACCGAAGCCAACATTTTTAATGT
49323418 GCAAGTGGTT
Statistics
Matches: 159, Mismatches: 14, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
213 3 0.02
214 43 0.27
215 35 0.22
216 59 0.37
217 19 0.12
ACGTcount: A:0.40, C:0.10, G:0.11, T:0.38
Consensus pattern (215 bp):
AACATCTTGAAATTTTATCATTTGTCATATACTACACAAATTCTTTCTTTTAAAATAGTCGTATC
AATTTCATTATATGAAAATTATAAAAAATTATAACATTAAATAATCAATTAGCGTGAGTACGAAA
GAAGTATAATATTAAAAATTGATACCGAAGCCAACATTTTTAATGTAAGTAATCGTATATGAATG
GTTTAGAATTTCGACACGTC
Found at i:49328763 original size:16 final size:16
Alignment explanation
Indices: 49328742--49328776 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
49328732 ATAAAAAAGA
49328742 AAAATGTTATTATTTT
1 AAAATGTTATTATTTT
*
49328758 AAAATGTTGTTATTTT
1 AAAATGTTATTATTTT
49328774 AAA
1 AAA
49328777 CGATTGTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (16 bp):
AAAATGTTATTATTTT
Found at i:49331149 original size:5 final size:5
Alignment explanation
Indices: 49331100--49331164 Score: 64
Period size: 5 Copynumber: 13.2 Consensus size: 5
49331090 TTTTTATGTT
* *
49331100 TTATA -TATA TTAT- TT-TA TTATA TAATATA ATATA ATATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA T--TATA TTATA TTATA TTATA TTATA
*
49331149 TTGTA TTATA TTATA T
1 TTATA TTATA TTATA T
49331165 AAATTAAATA
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
3 1 0.02
4 8 0.16
5 38 0.75
7 4 0.08
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (5 bp):
TTATA
Found at i:49332369 original size:21 final size:21
Alignment explanation
Indices: 49332308--49332372 Score: 85
Period size: 21 Copynumber: 3.1 Consensus size: 21
49332298 GGCTTTGCCG
*
49332308 ATCAGGCACTTTATGTGTCCT
1 ATCAGGCACTTTATGTGTCGT
* **
49332329 ATCAGGCACCTCGTGTGTCGT
1 ATCAGGCACTTTATGTGTCGT
*
49332350 TTCAGGCACTTTATGTGTCGT
1 ATCAGGCACTTTATGTGTCGT
49332371 AT
1 AT
49332373 ACTGATCAGG
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (21 bp):
ATCAGGCACTTTATGTGTCGT
Found at i:49339696 original size:5 final size:5
Alignment explanation
Indices: 49339686--49339735 Score: 57
Period size: 5 Copynumber: 10.0 Consensus size: 5
49339676 TTTTTATTTC
* * *
49339686 ATAAT ATAAT ATAAT ATAATT ATAAT ATAAT -TATT ATAAT TTAAC ATAAT
1 ATAAT ATAAT ATAAT ATAA-T ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
49339736 TAAATTTTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
4 3 0.08
5 29 0.78
6 5 0.14
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (5 bp):
ATAAT
Found at i:49339711 original size:16 final size:16
Alignment explanation
Indices: 49339686--49339737 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
49339676 TTTTTATTTC
49339686 ATAA-TATAATATAAT
1 ATAATTATAATATAAT
49339701 ATAATTATAATATAAT
1 ATAATTATAATATAAT
* *
49339717 -T-ATTATAATTTAAC
1 ATAATTATAATATAAT
49339731 ATAATTA
1 ATAATTA
49339738 AATTTTTAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
14 11 0.34
15 6 0.19
16 15 0.47
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
ATAATTATAATATAAT
Found at i:49342228 original size:12 final size:12
Alignment explanation
Indices: 49342210--49342238 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
49342200 ATTTTGATCC
49342210 TTATTTTTATT-
1 TTATTTTTATTA
49342221 TTATTTTTATTA
1 TTATTTTTATTA
49342233 TTATTT
1 TTATTT
49342239 ACAGTTTGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (12 bp):
TTATTTTTATTA
Found at i:49342307 original size:3 final size:3
Alignment explanation
Indices: 49342299--49342344 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
49342289 TTTAACTTCA
49342299 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
49342345 AACTGTTTTA
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:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:49345687 original size:26 final size:26
Alignment explanation
Indices: 49345658--49345711 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
49345648 AATTTATGTG
49345658 TTATATTTAATATTTTAATAATTGTA
1 TTATATTTAATATTTTAATAATTGTA
49345684 TTATATTTAATATTTTAATAATTGTA
1 TTATATTTAATATTTTAATAATTGTA
49345710 TT
1 TT
49345712 TGTAATTGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (26 bp):
TTATATTTAATATTTTAATAATTGTA
Found at i:49347107 original size:12 final size:12
Alignment explanation
Indices: 49347092--49347121 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
49347082 ATGATGTATA
49347092 TATATATATATG
1 TATATATATATG
*
49347104 TATATGTATATG
1 TATATATATATG
49347116 TATATA
1 TATATA
49347122 AAAAATGTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (12 bp):
TATATATATATG
Found at i:49347454 original size:26 final size:26
Alignment explanation
Indices: 49347419--49347472 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
49347409 TTTAAAAAAT
* * **
49347419 ATGTACGTATGTATATATATGACAAA
1 ATGTAAGTATGTACATATACAACAAA
49347445 ATGTAAGTATGTACATATACAACAAA
1 ATGTAAGTATGTACATATACAACAAA
49347471 AT
1 AT
49347473 TTGAAACTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.46, C:0.09, G:0.13, T:0.31
Consensus pattern (26 bp):
ATGTAAGTATGTACATATACAACAAA
Found at i:49350663 original size:15 final size:16
Alignment explanation
Indices: 49350633--49350664 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
49350623 TTATATTATA
49350633 AAAATATTATTAAATT
1 AAAATATTATTAAATT
49350649 AAAATATTA-TAAATT
1 AAAATATTATTAAATT
49350664 A
1 A
49350665 TATTAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AAAATATTATTAAATT
Found at i:49350668 original size:25 final size:26
Alignment explanation
Indices: 49350625--49350677 Score: 74
Period size: 24 Copynumber: 2.1 Consensus size: 26
49350615 TTCTTGATTT
49350625 ATATTATAAAAATATTATTAAATTAAA
1 ATATTATAAAAATATTATT-AATTAAA
*
49350652 ATATTAT-AAATTA-TATTAATTAAA
1 ATATTATAAAAATATTATTAATTAAA
49350676 AT
1 AT
49350678 GAAGATAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 9 0.36
25 4 0.16
26 5 0.20
27 7 0.28
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (26 bp):
ATATTATAAAAATATTATTAATTAAA
Found at i:49350685 original size:25 final size:22
Alignment explanation
Indices: 49350635--49350692 Score: 53
Period size: 24 Copynumber: 2.4 Consensus size: 22
49350625 ATATTATAAA
**
49350635 AATATTATTAAATTAAAATATTAT
1 AATA-TATT-AATTAAAATAAGAT
49350659 AAATTATATTAATTAAAATGAAGAT
1 -AA-TATATTAATTAAAAT-AAGAT
49350684 AATATATTA
1 AATATATTA
49350693 TAGGAAACAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
23 7 0.24
24 11 0.38
25 9 0.31
26 2 0.07
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.41
Consensus pattern (22 bp):
AATATATTAATTAAAATAAGAT
Found at i:49350838 original size:3 final size:3
Alignment explanation
Indices: 49350825--49350876 Score: 97
Period size: 3 Copynumber: 17.7 Consensus size: 3
49350815 AATAAAATAC
49350825 TAT TA- 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
49350872 TAT TA
1 TAT TA
49350877 ACTAATGCAT
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 46 0.96
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:49350931 original size:19 final size:19
Alignment explanation
Indices: 49350909--49350950 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
49350899 ATGAAATAAA
49350909 AGAATAG-AAAAAGAGAAAC
1 AGAATAGCAAAAAGA-AAAC
49350928 AGAATAGCTAAAAAGAAAAC
1 AGAATAGC-AAAAAGAAAAC
49350948 AGA
1 AGA
49350951 CGAAAAAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 7 0.33
20 7 0.33
21 7 0.33
ACGTcount: A:0.67, C:0.07, G:0.19, T:0.07
Consensus pattern (19 bp):
AGAATAGCAAAAAGAAAAC
Found at i:49351412 original size:3 final size:3
Alignment explanation
Indices: 49351404--49351460 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
49351394 ATAGAAATTC
49351404 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
49351452 TAT TAT TAT
1 TAT TAT TAT
49351461 AAATTAATGT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:49352155 original size:21 final size:21
Alignment explanation
Indices: 49352082--49352192 Score: 114
Period size: 23 Copynumber: 5.1 Consensus size: 21
49352072 GGCTTTACCG
*
49352082 ATCAGGCACTTTATGTGTCAT
1 ATCAGGCACTTTATGTGTCGT
**
49352103 ACATCAAACACTTTATGTGTCGT
1 --ATCAGGCACTTTATGTGTCGT
49352126 ATCTCAGGCACTTTATGTGTCGT
1 A--TCAGGCACTTTATGTGTCGT
* **
49352149 ATCAGGCACCTCGTGTGTCGT
1 ATCAGGCACTTTATGTGTCGT
* *
49352170 TTTAGGCACTTTATGTGTCGT
1 ATCAGGCACTTTATGTGTCGT
49352191 AT
1 AT
49352193 ACTAATCAGG
Statistics
Matches: 72, Mismatches: 14, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
21 35 0.49
23 37 0.51
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (21 bp):
ATCAGGCACTTTATGTGTCGT
Found at i:49352695 original size:46 final size:46
Alignment explanation
Indices: 49352622--49352760 Score: 208
Period size: 46 Copynumber: 3.0 Consensus size: 46
49352612 ACAATGCTAT
*
49352622 AACTCAGTATAGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
* *
49352668 AACTCAATATGGTTTTCTTTA-TCGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACT-GAAACACCATACCTACTTTTCAC
* * *
49352714 AACTCAGTATGGTTTTCTTCACTGAAATACCATTCCTACGTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
49352760 A
1 A
49352761 TTTTGTCATG
Statistics
Matches: 83, Mismatches: 8, Indels: 4
0.87 0.08 0.04
Matches are distributed among these distances:
45 1 0.01
46 81 0.98
47 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.08, T:0.36
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
Found at i:49356426 original size:42 final size:42
Alignment explanation
Indices: 49356345--49356426 Score: 94
Period size: 42 Copynumber: 2.0 Consensus size: 42
49356335 TCATTTTCTC
* * * *
49356345 GATGCCATAGTCCAACTATAGTCTTATACATATTTACATATT
1 GATGCCATAGCCCAACTATAGTCTTACACATAATCACATATT
* *
49356387 GATGCCATAGCCCAA-TCATGGTCTTACACGTAATCACATA
1 GATGCCATAGCCCAACT-ATAGTCTTACACATAATCACATA
49356427 ACACATACCG
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
41 1 0.03
42 32 0.97
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.32
Consensus pattern (42 bp):
GATGCCATAGCCCAACTATAGTCTTACACATAATCACATATT
Found at i:49356577 original size:49 final size:49
Alignment explanation
Indices: 49356387--49356563 Score: 241
Period size: 49 Copynumber: 3.6 Consensus size: 49
49356377 TTTACATATT
* * * *
49356387 GATGCCATAGCCCAATC-ATGGTCTTACACGTAATCACATAACACATACC
1 GATGCCATAG-CCAAGCTATGGTCTTACACGAAATCACATATCACTTACC
49356436 GATGCCATAGCCAAGCTATGGTCTTACACGAAATCACATATCACTTACC
1 GATGCCATAGCCAAGCTATGGTCTTACACGAAATCACATATCACTTACC
* * * *
49356485 GATGCCACAGCCTAGCTATGGTCTTACACAAAATCGCATATCACTTACC
1 GATGCCATAGCCAAGCTATGGTCTTACACGAAATCACATATCACTTACC
*
49356534 AATGCCATAGCTC-AGCTATGGTCTTACACG
1 GATGCCATAGC-CAAGCTATGGTCTTACACG
49356564 GATACACACA
Statistics
Matches: 115, Mismatches: 11, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
48 5 0.04
49 109 0.95
50 1 0.01
ACGTcount: A:0.32, C:0.29, G:0.15, T:0.24
Consensus pattern (49 bp):
GATGCCATAGCCAAGCTATGGTCTTACACGAAATCACATATCACTTACC
Found at i:49361890 original size:22 final size:22
Alignment explanation
Indices: 49361862--49361909 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
49361852 GGCATTAGCT
*
49361862 TGAAGGCTTTATAAATATTTTG
1 TGAAGGCTTTATAAATATCTTG
*
49361884 TGAAGGCTTTATAATTATCTTG
1 TGAAGGCTTTATAAATATCTTG
49361906 TGAA
1 TGAA
49361910 ATCATGACAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.31, C:0.06, G:0.19, T:0.44
Consensus pattern (22 bp):
TGAAGGCTTTATAAATATCTTG
Found at i:49363619 original size:54 final size:53
Alignment explanation
Indices: 49363424--49363620 Score: 189
Period size: 54 Copynumber: 3.6 Consensus size: 53
49363414 AAAAGGTTGT
* * * * * *
49363424 TAAAATGACCGAAATACCTCTATAGGGTAAAATAACCAAAATACCCTCAA-TGAG
1 TAAAATTATCGAAATACC-CTAAAAGGTAAAATGACTAAAATACCCTCAATTG-G
* * * *** * *
49363478 TAAAATTATCAAAATACCCCAAATGGGTAAAATTTTTAAAATACCCTCGATGGG
1 TAAAATTATCGAAATACCCTAAA-AGGTAAAATGACTAAAATACCCTCAATTGG
* * *
49363532 TAAATTTATCGAAATACCCTTAAAAGATAAAATGACTGAAATACCCTCAATTGG
1 TAAAATTATCGAAATACCC-TAAAAGGTAAAATGACTAAAATACCCTCAATTGG
49363586 TAAAATTATCGAAATACCCTAATAAGGTAAAATGA
1 TAAAATTATCGAAATACCCTAA-AAGGTAAAATGA
49363621 TCGTCATACC
Statistics
Matches: 115, Mismatches: 24, Indels: 8
0.78 0.16 0.05
Matches are distributed among these distances:
53 6 0.05
54 105 0.91
55 4 0.03
ACGTcount: A:0.46, C:0.17, G:0.12, T:0.25
Consensus pattern (53 bp):
TAAAATTATCGAAATACCCTAAAAGGTAAAATGACTAAAATACCCTCAATTGG
Found at i:49363623 original size:27 final size:27
Alignment explanation
Indices: 49363424--49363632 Score: 108
Period size: 27 Copynumber: 7.7 Consensus size: 27
49363414 AAAAGGTTGT
* * *
49363424 TAAAATGACCGAAATACCTCT-ATAGGG
1 TAAAATTATCGAAATACC-CTAATAAGG
* * * *
49363451 TAAAATAACCAAAATACCCTCAATGA-G
1 TAAAATTATCGAAATACCCT-AATAAGG
* * *
49363478 TAAAATTATCAAAATACCCCAA-ATGGG
1 TAAAATTATCGAAATACCCTAATA-AGG
* ** * *
49363505 TAAAATTTTTAAAATACCCTCGAT-GGG
1 TAAAATTATCGAAATACCCT-AATAAGG
* *
49363532 TAAATTTATCGAAATACCCTTAA-AAGA
1 TAAAATTATCGAAATACCC-TAATAAGG
* *
49363559 TAAAATGA-CTGAAATACCCTCAAT-TGG
1 TAAAATTATC-GAAATACCCT-AATAAGG
49363586 TAAAATTATCGAAATACCCTAATAAGG
1 TAAAATTATCGAAATACCCTAATAAGG
* **
49363613 TAAAATGATCGTCATACCCT
1 TAAAATTATCGAAATACCCT
49363633 TAGGAGATGA
Statistics
Matches: 140, Mismatches: 29, Indels: 26
0.72 0.15 0.13
Matches are distributed among these distances:
26 9 0.06
27 126 0.90
28 5 0.04
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.26
Consensus pattern (27 bp):
TAAAATTATCGAAATACCCTAATAAGG
Found at i:49366832 original size:22 final size:24
Alignment explanation
Indices: 49366802--49366884 Score: 80
Period size: 25 Copynumber: 3.5 Consensus size: 24
49366792 CTATAGTGTA
*
49366802 GTGGCAA-G-GTGGCGACACAGGT
1 GTGGCAAGGAGTGGAGACACAGGT
*
49366824 GTGGTAAGGAAGTGGAGACACAGGT
1 GTGGCAAGG-AGTGGAGACACAGGT
* * *
49366849 GTGGCTAGGAATTGGAGTCACAGGT
1 GTGGCAAGG-AGTGGAGACACAGGT
*
49366874 GTGGTAAGGAG
1 GTGGCAAGGAG
49366885 GTCAGAGGTT
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
22 6 0.12
23 1 0.02
24 1 0.02
25 41 0.84
ACGTcount: A:0.27, C:0.11, G:0.45, T:0.18
Consensus pattern (24 bp):
GTGGCAAGGAGTGGAGACACAGGT
Found at i:49366838 original size:25 final size:25
Alignment explanation
Indices: 49366810--49366883 Score: 105
Period size: 25 Copynumber: 3.0 Consensus size: 25
49366800 TAGTGGCAAG
*
49366810 GTGGCGACACAGGTGTGGTAAGGAA
1 GTGGAGACACAGGTGTGGTAAGGAA
49366835 GTGGAGACACAGGTGTGGCT-AGGAA
1 GTGGAGACACAGGTGTGG-TAAGGAA
* *
49366860 TTGGAGTCACAGGTGTGGTAAGGA
1 GTGGAGACACAGGTGTGGTAAGGA
49366884 GGTCAGAGGT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
24 1 0.02
25 42 0.95
26 1 0.02
ACGTcount: A:0.27, C:0.11, G:0.43, T:0.19
Consensus pattern (25 bp):
GTGGAGACACAGGTGTGGTAAGGAA
Found at i:49367956 original size:42 final size:41
Alignment explanation
Indices: 49367896--49368144 Score: 345
Period size: 42 Copynumber: 5.9 Consensus size: 41
49367886 CGTTTTCTCA
* * *
49367896 ATGCCATAGTCCAACTATGGTCTTACACATAATTACATATCG
1 ATGCCATAG-CCAGCTATGGTCTTACACGTAATCACATATCG
49367938 ATGCCATAGCCTAGCTATGGTCTTACACGTAATCACATATCG
1 ATGCCATAGCC-AGCTATGGTCTTACACGTAATCACATATCG
*
49367980 ATGCCATAGAGCAGCTATGGTCTTACACGTAATCACATATCG
1 ATGCCATAG-CCAGCTATGGTCTTACACGTAATCACATATCG
* *
49368022 ATGTCATAGCCCAGCTATGGTCTTATACGTAATCACATATCG
1 ATGCCATAG-CCAGCTATGGTCTTACACGTAATCACATATCG
* *
49368064 ATGCCATAGCCCGGCTATGGTCTTACATGTAATCACATATCG
1 ATGCCATAG-CCAGCTATGGTCTTACACGTAATCACATATCG
* **
49368106 ATGCCATAGCCTAGCTCTAATCTTACACGTAATCACATA
1 ATGCCATAGCC-AGCTATGGTCTTACACGTAATCACATA
49368145 CTGCCATGGT
Statistics
Matches: 187, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
41 4 0.02
42 182 0.97
43 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (41 bp):
ATGCCATAGCCAGCTATGGTCTTACACGTAATCACATATCG
Found at i:49369285 original size:12 final size:12
Alignment explanation
Indices: 49369268--49369301 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
49369258 GACACTCTGT
*
49369268 AAATATTTATAA
1 AAATATTTACAA
49369280 AAATATTTACAA
1 AAATATTTACAA
49369292 AAATATTTAC
1 AAATATTTAC
49369302 GGCTTGGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (12 bp):
AAATATTTACAA
Found at i:49374139 original size:12 final size:12
Alignment explanation
Indices: 49374122--49374148 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
49374112 ACTAACCCCA
49374122 CCCCACCACCAC
1 CCCCACCACCAC
49374134 CCCCACCACCAC
1 CCCCACCACCAC
49374146 CCC
1 CCC
49374149 AACCCTCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.78, G:0.00, T:0.00
Consensus pattern (12 bp):
CCCCACCACCAC
Found at i:49376326 original size:23 final size:22
Alignment explanation
Indices: 49376282--49376332 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
49376272 ATTGTATATG
*
49376282 TATATTTATATATTTTGTTTTA
1 TATAATTATATATTTTGTTTTA
*
49376304 TTTAATTATATATTTT-TAATTTA
1 TATAATTATATATTTTGT--TTTA
49376327 TATAAT
1 TATAAT
49376333 GTAAATCATT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 1 0.04
22 14 0.58
23 9 0.38
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (22 bp):
TATAATTATATATTTTGTTTTA
Found at i:49377992 original size:50 final size:50
Alignment explanation
Indices: 49377877--49378175 Score: 427
Period size: 50 Copynumber: 5.8 Consensus size: 50
49377867 GATAATAACA
* ** *
49377877 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * **
49377928 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
49377978 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
49378028 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
49378078 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATGATCTTAAGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATC-T-CGG
* *
49378133 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
49378176 TTACCCAAAT
Statistics
Matches: 226, Mismatches: 16, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
50 147 0.65
51 33 0.15
53 3 0.01
54 1 0.00
55 2 0.01
56 40 0.18
ACGTcount: A:0.21, C:0.31, G:0.22, T:0.25
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:49378291 original size:13 final size:13
Alignment explanation
Indices: 49378270--49378300 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
49378260 GCTTAGATCA
*
49378270 TCATCAAATAAAT
1 TCATAAAATAAAT
49378283 TCATAAAATAAAT
1 TCATAAAATAAAT
49378296 TCATA
1 TCATA
49378301 GTTTCTGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:49378548 original size:30 final size:30
Alignment explanation
Indices: 49378513--49378570 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
49378503 CCTCGACTCT
*
49378513 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
49378543 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
49378571 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:49380251 original size:17 final size:17
Alignment explanation
Indices: 49380213--49380265 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 17
49380203 TATTTTTTTA
* *
49380213 ATTAAAATTAAAAATAC
1 ATTAAAATTCAAAATAT
*
49380230 ATAAAAATTCAAAAT-T
1 ATTAAAATTCAAAATAT
*
49380246 ATTAAAATTTAAAATAT
1 ATTAAAATTCAAAATAT
49380263 ATT
1 ATT
49380266 TATAAATTGA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
16 13 0.43
17 17 0.57
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (17 bp):
ATTAAAATTCAAAATAT
Found at i:49381056 original size:190 final size:185
Alignment explanation
Indices: 49380721--49381085 Score: 428
Period size: 190 Copynumber: 1.9 Consensus size: 185
49380711 TACCATCACG
* * *
49380721 CGCCGCAAAAATCTTAACGAAAACGCATCGTTTTGTCTCGCTGTATATTAGCATTAGTGGCGCTT
1 CGCCGCAAAAATCCTAACCAAAACGCACCGTTTTGTCTCGCTGTATATTAGCATTAGTGGCGCTT
* * * * *
49380786 ACGAAAACCCGCCGCTAAAGCAAGTATTAGCGGCGCTTACTAAAAGCGCCACAATATTTGTTAAC
66 ACGAAAA-CCGCCACTAAAGCAAATATTAGCGGCGCTTACTAAAAGCGCCACAAAATATCTTAAC
* *
49380851 CAAAACGCAGAGTTTGGTCTAGAGGTATATTAGAATTTGTGGCGCTTATGGGAAAA
130 CAAAACGCAGAGTTTGGTCTAGAGGTATACTAGAATTAGTGGCGCTTATGGGAAAA
* * * *
49380907 CGCCGCAAAATATCCTAACCAAAGCGCACCGTTTTGGTCTTGGTGTATGTTA-CAGTTAGTGGCG
1 CGCCGCAAAA-ATCCTAACCAAAACGCACCGTTTT-GTCTCGCTGTATATTAGCA-TTAGTGGCG
* * * ** * *
49380971 TTTAAGGGAAAA-CGCCACTAAAGCATAATATTAGCGGCGTTTTGTGAGAAGCGCCGCAAAATAT
63 CTT-A-CGAAAACCGCCACTAAAGCA-AATATTAGCGGCGCTTACT-AAAAGCGCCACAAAATAT
* * *
49381035 CTTAACTAAAATGCAGAGTTTGGTCTTGAGGTATACTAGAATTAGTGGCGC
124 CTTAACCAAAACGCAGAGTTTGGTCTAGAGGTATACTAGAATTAGTGGCGC
49381086 AAAGGGAACA
Statistics
Matches: 148, Mismatches: 24, Indels: 10
0.81 0.13 0.05
Matches are distributed among these distances:
186 10 0.07
187 22 0.15
188 36 0.24
189 16 0.11
190 64 0.43
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.27
Consensus pattern (185 bp):
CGCCGCAAAAATCCTAACCAAAACGCACCGTTTTGTCTCGCTGTATATTAGCATTAGTGGCGCTT
ACGAAAACCGCCACTAAAGCAAATATTAGCGGCGCTTACTAAAAGCGCCACAAAATATCTTAACC
AAAACGCAGAGTTTGGTCTAGAGGTATACTAGAATTAGTGGCGCTTATGGGAAAA
Found at i:49381459 original size:115 final size:113
Alignment explanation
Indices: 49380907--49381518 Score: 559
Period size: 114 Copynumber: 5.4 Consensus size: 113
49380897 TATGGGAAAA
* * ** ** * *
49380907 CGCCGCAAAATATCCTAACCAAAGCGCACCGTTTTGGTCTTG-GTGTATGTTACAGTTAGTGGCG
1 CGCCGCAAAATATCTTAACCAAAACGCAGAGTTTT-GTCTTGAG-GTATACTAGAATTAGTGGCG
** * * * *
49380971 TTTAAGGGAAAACGCCACTAAAGCATAATATTAGCGGCG-TTTTGTGAGAAG
64 CATATGAG-AAACGCCGCTAAAGCATACTATTAGCGGCGCTTTT-TGAGAAG
* * *
49381022 CGCCGCAAAATATCTTAACTAAAATGCAGAGTTTGGTCTTGAGGTATACTAGAATTAGTGGCGCA
1 CGCCGCAAAATATCTTAACCAAAACGCAGAGTTTTGTCTTGAGGTATACTAGAATTAGTGGCGCA
* * * * **
49381087 -AAGGGAACACGCCGCTAAGGCATACTATTAGCGGCGCGTTCGGAGAAG
66 TATGAGAA-ACGCCGCTAAAGCATACTATTAGCGGCGCTTTTTGAGAAG
* * ** * * **
49381135 CGCCGCAAAATTTCGTAACCAAAACGCAGCTTTTTGTCTTGATGTATACAATTATTAGTGGCGCA
1 CGCCGCAAAATATCTTAACCAAAACGCAGAGTTTTGTCTTGAGGTATACTAGAATTAGTGGCGCA
* * * * *** *
49381200 TATTAAAAAATGCCGCTAAAGCATAGTATTAGCGGCGCTTTGAAAAAAG
66 TA-TGAGAAACGCCGCTAAAGCATACTATTAGCGGCGCTTTTTGAGAAG
* * * * * *
49381249 CACCGCAAAATATGC-TCACCAAAGCGCAGAGTTTTTTCATGAGGTATATTAGAATTAGTGGCGC
1 CGCCGCAAAATAT-CTTAACCAAAACGCAGAGTTTTGTCTTGAGGTATACTAGAATTAGTGGCGC
* *
49381313 TTATGGGAGAACGCCGCTAAAGCATACTATTAGCGGCGCTTTTTGAGAAG
65 ATATGAGA-AACGCCGCTAAAGCATACTATTAGCGGCGCTTTTTGAGAAG
* * * * * *
49381363 CGCTGCAAAATATATTAACCAAAACGCAGCGTTTAAGTCTTGATGTATACTGGAATTAGTGGCGT
1 CGCCGCAAAATATCTTAACCAAAACGCAGAGTTT-TGTCTTGAGGTATACTAGAATTAGTGGCG-
* * * *
49381428 C-CACGAGAAATCACCGCTAAAGCATAGTATTAGCGGCGCTTTTTGAGAAG
64 CATATGAGAAA-CGCCGCTAAAGCATACTATTAGCGGCGCTTTTTGAGAAG
*
49381478 CGCCGGAAAATATCTTAACCAAAACGCAGAGTTTTGGTCTT
1 CGCCGCAAAATATCTTAACCAAAACGCAGAGTTTT-GTCTT
49381519 AACCATGCAT
Statistics
Matches: 398, Mismatches: 87, Indels: 24
0.78 0.17 0.05
Matches are distributed among these distances:
112 2 0.01
113 92 0.23
114 172 0.43
115 131 0.33
116 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (113 bp):
CGCCGCAAAATATCTTAACCAAAACGCAGAGTTTTGTCTTGAGGTATACTAGAATTAGTGGCGCA
TATGAGAAACGCCGCTAAAGCATACTATTAGCGGCGCTTTTTGAGAAG
Found at i:49381490 original size:229 final size:227
Alignment explanation
Indices: 49380988--49381513 Score: 630
Period size: 229 Copynumber: 2.3 Consensus size: 227
49380978 GAAAACGCCA
* * *
49380988 CTAAAGCATAATATTAGCGGCG-TTTTGTGAGAAGCGCCGCAAAATATCTTAACTAAAATGCAGA
1 CTAAAGCATAGTATTAGCGGCGCTTTT-TGAGAAGCGCCGCAAAATATCTTAACCAAAACGCAGA
* * *
49381052 GTTTGGTCTTGAGGTATACTAGAATTAGTGGCGCAAAGGGAACACGCCGCTAAGGCATACTATTA
65 GTTTTGTCATGAGGTATACTAGAATTAGTGGCGCAAAGGGAACACGCCGCTAAAGCATACTATTA
* * **
49381117 GCGGCGCGTTCGGAGAAGCGCCGCAAAATTTCGTAACCAAAACGCAGCTTTTTGTCTTGATGTAT
130 GCGGCGCGTTCGGAGAAGCGCCGCAAAATATAGTAACCAAAACGCAGCTTTAAGTCTTGATGTAT
** * * *
49381182 ACAATTATTAGTGGCGCATATTAAAAAATGCCG
195 ACAAGAATTAGTGGCGCACATCAAAAAATACCG
*** * * * *
49381215 CTAAAGCATAGTATTAGCGGCGCTTTGAAAAAAGCACCGCAAAATATGC-TCACCAAAGCGCAGA
1 CTAAAGCATAGTATTAGCGGCGCTTTTTGAGAAGCGCCGCAAAATAT-CTTAACCAAAACGCAGA
* * * *
49381279 GTTTTTTCATGAGGTATATTAGAATTAGTGGCGCTTATGGGAGA-ACGCCGCTAAAGCATACTAT
65 GTTTTGTCATGAGGTATACTAGAATTAGTGGCGC-AAAGGGA-ACACGCCGCTAAAGCATACTAT
* ** * *
49381343 TAGCGGCGCTTTTTGAGAAGCGCTGCAAAATATATTAACCAAAACGCAGCGTTTAAGTCTTGATG
128 TAGCGGCGCGTTCGGAGAAGCGCCGCAAAATATAGTAACCAAAACGCAGC-TTTAAGTCTTGATG
** * *
49381408 TATACTGGAATTAGTGGCGTC-CA-CGAGAAATCACCG
192 TATACAAGAATTAGTGGCG-CACATCAAAAAAT-ACCG
*
49381444 CTAAAGCATAGTATTAGCGGCGCTTTTTGAGAAGCGCCGGAAAATATCTTAACCAAAACGCAGAG
1 CTAAAGCATAGTATTAGCGGCGCTTTTTGAGAAGCGCCGCAAAATATCTTAACCAAAACGCAGAG
49381509 TTTTG
66 TTTTG
49381514 GTCTTAACCA
Statistics
Matches: 247, Mismatches: 44, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
227 78 0.32
228 77 0.31
229 91 0.37
230 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (227 bp):
CTAAAGCATAGTATTAGCGGCGCTTTTTGAGAAGCGCCGCAAAATATCTTAACCAAAACGCAGAG
TTTTGTCATGAGGTATACTAGAATTAGTGGCGCAAAGGGAACACGCCGCTAAAGCATACTATTAG
CGGCGCGTTCGGAGAAGCGCCGCAAAATATAGTAACCAAAACGCAGCTTTAAGTCTTGATGTATA
CAAGAATTAGTGGCGCACATCAAAAAATACCG
Found at i:49386695 original size:9 final size:9
Alignment explanation
Indices: 49386319--49387145 Score: 774
Period size: 9 Copynumber: 92.4 Consensus size: 9
49386309 CACAAATTAA
49386319 ATAACTTAC
1 ATAACTTAC
49386328 ATTAA-TTAC
1 A-TAACTTAC
49386337 ATAACTTAC
1 ATAACTTAC
* * *
49386346 AAAAATTAA
1 ATAACTTAC
49386355 ATAACTTAC
1 ATAACTTAC
49386364 ATAACTTAC
1 ATAACTTAC
49386373 ATAACTTAC
1 ATAACTTAC
*
49386382 ATAAATTA-
1 ATAACTTAC
49386390 AGTAACTTAC
1 A-TAACTTAC
49386400 ATAACTTAC
1 ATAACTTAC
*
49386409 ATAAATTA-
1 ATAACTTAC
49386417 AGTAACTTAC
1 A-TAACTTAC
*
49386427 ATAACTTAT
1 ATAACTTAC
49386436 ATAACTTAC
1 ATAACTTAC
* *
49386445 ATAAATTAA
1 ATAACTTAC
49386454 ATAACTTAC
1 ATAACTTAC
49386463 ATAACTTAC
1 ATAACTTAC
* *
49386472 ATAAATTAA
1 ATAACTTAC
*
49386481 ATATCTTAC
1 ATAACTTAC
49386490 ATAACTTAC
1 ATAACTTAC
*
49386499 ATAAATTA-
1 ATAACTTAC
49386507 AGTAACTTAC
1 A-TAACTTAC
49386517 ATAACTTAC
1 ATAACTTAC
49386526 ATAACTTAC
1 ATAACTTAC
* *
49386535 ATAAATTAA
1 ATAACTTAC
49386544 ATAACTTAC
1 ATAACTTAC
49386553 ATAACTTAC
1 ATAACTTAC
*
49386562 ATAAATTA-
1 ATAACTTAC
49386570 AGTAACTTAC
1 A-TAACTTAC
49386580 ATAACTTAC
1 ATAACTTAC
49386589 ATAACTTAC
1 ATAACTTAC
* *
49386598 ATAAATTAA
1 ATAACTTAC
49386607 ATAACTTAC
1 ATAACTTAC
49386616 ATAACTTAC
1 ATAACTTAC
*
49386625 ATAAATTA-
1 ATAACTTAC
49386633 AGTAACTTAC
1 A-TAACTTAC
* *
49386643 ATAAATTAA
1 ATAACTTAC
49386652 ATAACTTAC
1 ATAACTTAC
*
49386661 ATAAATTA-
1 ATAACTTAC
*
49386669 AGTAAATTA-
1 A-TAACTTAC
49386678 AGTAACTTAC
1 A-TAACTTAC
*
49386688 ATAGCTTAC
1 ATAACTTAC
49386697 ATAACTTAC
1 ATAACTTAC
*
49386706 ATAAATTA-
1 ATAACTTAC
49386714 AGTAACTTAC
1 A-TAACTTAC
49386724 ATAACTTAC
1 ATAACTTAC
* *
49386733 ATAAATTAA
1 ATAACTTAC
49386742 ATAACTTAC
1 ATAACTTAC
*
49386751 ATAAATTA-
1 ATAACTTAC
49386759 AGTAACTTAC
1 A-TAACTTAC
49386769 ATAACTTAC
1 ATAACTTAC
*
49386778 ATAAATTA-
1 ATAACTTAC
49386786 AGTAACTTAC
1 A-TAACTTAC
*
49386796 ATAACTTAT
1 ATAACTTAC
49386805 ATAACTTAC
1 ATAACTTAC
49386814 ATAA--TAC
1 ATAACTTAC
* *
49386821 ATAAATTAAG
1 ATAACTT-AC
49386831 ATAACTTAC
1 ATAACTTAC
49386840 ATAACTTAC
1 ATAACTTAC
*
49386849 ATAAATTA-
1 ATAACTTAC
49386857 AGTAACTTAC
1 A-TAACTTAC
49386867 ATAACTTAC
1 ATAACTTAC
*
49386876 ATAACTTAA
1 ATAACTTAC
*
49386885 ATAACTTGC
1 ATAACTTAC
*
49386894 ATAAATTA-
1 ATAACTTAC
49386902 AGTAACTTAC
1 A-TAACTTAC
49386912 ATAACTTAC
1 ATAACTTAC
* *
49386921 ATAAATTAA
1 ATAACTTAC
49386930 ATAACTTAC
1 ATAACTTAC
49386939 ATAACTTAC
1 ATAACTTAC
*
49386948 ATAAATTA-
1 ATAACTTAC
49386956 AGTAACTTAC
1 A-TAACTTAC
49386966 ATAACTTAC
1 ATAACTTAC
* *
49386975 ATAAATTAA
1 ATAACTTAC
**
49386984 ATAACTGGC
1 ATAACTTAC
49386993 ATAACTTAC
1 ATAACTTAC
*
49387002 ATTA--TAC
1 ATAACTTAC
49387009 ATAACCTT-C
1 ATAA-CTTAC
*
49387018 TTAACTTAC
1 ATAACTTAC
*
49387027 ATTA--TAC
1 ATAACTTAC
* *
49387034 ACAACTCAC
1 ATAACTTAC
*
49387043 ATAATGGTGTAGTAC
1 ATAA----CT--TAC
*
49387058 ACAACTTAC
1 ATAACTTAC
49387067 ATAA--TAC
1 ATAACTTAC
*
49387074 ATTACTTAC
1 ATAACTTAC
* *
49387083 ATAGCTTAA
1 ATAACTTAC
*
49387092 ATTACTTAC
1 ATAACTTAC
49387101 AGT-ACTTAC
1 A-TAACTTAC
49387110 ATAA--TAC
1 ATAACTTAC
49387117 ATAA--TAC
1 ATAACTTAC
49387124 ATAACTTAC
1 ATAACTTAC
49387133 ATAACTTAC
1 ATAACTTAC
49387142 ATAA
1 ATAA
49387146 TACATAAAAA
Statistics
Matches: 669, Mismatches: 102, Indels: 94
0.77 0.12 0.11
Matches are distributed among these distances:
7 38 0.06
8 19 0.03
9 581 0.87
10 24 0.04
11 1 0.00
13 1 0.00
15 5 0.01
ACGTcount: A:0.48, C:0.16, G:0.03, T:0.33
Consensus pattern (9 bp):
ATAACTTAC
Found at i:49387012 original size:25 final size:24
Alignment explanation
Indices: 49386965--49387039 Score: 69
Period size: 25 Copynumber: 3.0 Consensus size: 24
49386955 AAGTAACTTA
* *
49386965 CATAACTTACATAAATTAAATAACTGG
1 CATAACTTACAT-TA-TACATAACT-G
*
49386992 CATAACTTACATTATACATAACCTT
1 CATAACTTACATTATACATAA-CTG
* *
49387017 CTTAACTTACATTATACACAACT
1 CATAACTTACATTATACATAACT
49387040 CACATAATGG
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
24 2 0.05
25 25 0.60
26 3 0.07
27 12 0.29
ACGTcount: A:0.43, C:0.21, G:0.03, T:0.33
Consensus pattern (24 bp):
CATAACTTACATTATACATAACTG
Found at i:49387119 original size:7 final size:7
Alignment explanation
Indices: 49387107--49387152 Score: 56
Period size: 7 Copynumber: 6.0 Consensus size: 7
49387097 TTACAGTACT
49387107 TACATAA
1 TACATAA
49387114 TACATAA
1 TACATAA
49387121 TACATAA
1 TACATAA
49387128 CTTACATAA
1 --TACATAA
49387137 CTTACATAA
1 --TACATAA
49387146 TACATAA
1 TACATAA
49387153 AAATATATCA
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
7 21 0.57
9 16 0.43
ACGTcount: A:0.52, C:0.17, G:0.00, T:0.30
Consensus pattern (7 bp):
TACATAA
Found at i:49392758 original size:21 final size:21
Alignment explanation
Indices: 49392734--49392784 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
49392724 CTACAACTTA
*
49392734 AAGCAGAGGCGGCAACGAGGG
1 AAGCAGAGGCGGCAACGAGAG
* *
49392755 AAGCAGAGGCTGCAGCGAGAG
1 AAGCAGAGGCGGCAACGAGAG
49392776 AAGCAGAGG
1 AAGCAGAGG
49392785 TTCAAAAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.35, C:0.18, G:0.45, T:0.02
Consensus pattern (21 bp):
AAGCAGAGGCGGCAACGAGAG
Found at i:49393212 original size:44 final size:44
Alignment explanation
Indices: 49393164--49393330 Score: 153
Period size: 43 Copynumber: 3.9 Consensus size: 44
49393154 GTTTTTGTAC
*
49393164 AAAAGCGCCGCTAAAGAACATGGTCTTTAGTGGCGTTTATAAAA
1 AAAAGCGCCGCTAAAGAACATGTTCTTTAGTGGCGTTTATAAAA
* * * * *
49393208 AAAAGCGCCGCTGAAA-AACATGATATTTAGTGGCATTT-TTATA
1 AAAAGCGCCGCT-AAAGAACATGTTCTTTAGTGGCGTTTATAAAA
* * * * * *
49393251 CAAAGCGCCGTTAAAAAACATGTTCTTTAGCGGCGCTTA-ATAA
1 AAAAGCGCCGCTAAAGAACATGTTCTTTAGTGGCGTTTATAAAA
* * * *
49393294 AAAA-CGTCACTAAAGATCATGTTCTTCAGTGGCGTTT
1 AAAAGCGCCGCTAAAGAACATGTTCTTTAGTGGCGTTT
49393331 TTTTCCAAGC
Statistics
Matches: 96, Mismatches: 24, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
42 28 0.29
43 34 0.35
44 31 0.32
45 3 0.03
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (44 bp):
AAAAGCGCCGCTAAAGAACATGTTCTTTAGTGGCGTTTATAAAA
Found at i:49393269 original size:43 final size:43
Alignment explanation
Indices: 49393147--49393374 Score: 154
Period size: 42 Copynumber: 5.3 Consensus size: 43
49393137 AACCCAAAAA
* * * *
49393147 TAGTGGCGTTTTTGTACAAAAGCGCCGCTAAAGAACATGGTCTT
1 TAGTGGCGTTTTTATAC-AAAGCGCCGCTAAAAAACATGATATT
* * * *
49393191 TAGTGGCGTTTATAAAAAAAAGCGCCGCTGAAAAACATGATATT
1 TAGTGGCGTTT-TTATACAAAGCGCCGCTAAAAAACATGATATT
* * * *
49393235 TAGTGGCATTTTTATACAAAGCGCCGTTAAAAAACATGTTCTT
1 TAGTGGCGTTTTTATACAAAGCGCCGCTAAAAAACATGATATT
* * * * * * * * * * *
49393278 TAGCGGCG-CTTAATAAAAAACGTCACTAAAGATCATGTTCTT
1 TAGTGGCGTTTTTATACAAAGCGCCGCTAAAAAACATGATATT
* * * * *
49393320 CAGTGGCGTTTTT-TTCCAAGCGCCGCTAAAGAACATGGTATT
1 TAGTGGCGTTTTTATACAAAGCGCCGCTAAAAAACATGATATT
**
49393362 TAACGGCGTTTTT
1 TAGTGGCGTTTTT
49393375 GTTTGTAAAC
Statistics
Matches: 139, Mismatches: 43, Indels: 6
0.74 0.23 0.03
Matches are distributed among these distances:
42 61 0.44
43 33 0.24
44 43 0.31
45 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.31
Consensus pattern (43 bp):
TAGTGGCGTTTTTATACAAAGCGCCGCTAAAAAACATGATATT
Found at i:49393334 original size:87 final size:88
Alignment explanation
Indices: 49393148--49393369 Score: 222
Period size: 87 Copynumber: 2.6 Consensus size: 88
49393138 ACCCAAAAAT
* * * *
49393148 AGTGGCGTTTTTGTACAAAAGCGCCGCTAAAGAACATGGTCTTTAGTGGCGTTTATAAAAAAAAG
1 AGTGGCGTTTTTTTACAAAAGCGCCGCTAAAAAACATGGTCTTTAGCGGCGCTTATAAAAAAAAG
* *
49393213 CGCCGCTGAAAAACATGATATTT
66 CGCCACTGAAAAACATGATATTC
* * * * *
49393236 AGTGGCATTTTTATAC-AAAGCGCCGTTAAAAAACATGTTCTTTAGCGGCGCTTA-ATAAAAAA-
1 AGTGGCGTTTTTTTACAAAAGCGCCGCTAAAAAACATGGTCTTTAGCGGCGCTTATAAAAAAAAG
* * * *
49393298 CGTCACT-AAAGATCATGTTCTTC
66 CGCCACTGAAA-AACATGATATTC
* * * *
49393321 AGTGGCGTTTTTTT-C-CAAGCGCCGCTAAAGAACATGGTATTTAACGGCG
1 AGTGGCGTTTTTTTACAAAAGCGCCGCTAAAAAACATGGTCTTTAGCGGCG
49393370 TTTTTGTTTG
Statistics
Matches: 111, Mismatches: 22, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
84 32 0.29
85 25 0.23
86 7 0.06
87 33 0.30
88 14 0.13
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (88 bp):
AGTGGCGTTTTTTTACAAAAGCGCCGCTAAAAAACATGGTCTTTAGCGGCGCTTATAAAAAAAAG
CGCCACTGAAAAACATGATATTC
Found at i:49395427 original size:25 final size:26
Alignment explanation
Indices: 49395380--49395436 Score: 89
Period size: 25 Copynumber: 2.2 Consensus size: 26
49395370 GACAAAAAAA
*
49395380 ATAAAACTGTTTAAAAAAATAAACTG
1 ATAAAACTATTTAAAAAAATAAACTG
49395406 ATAAAACTATTT-AAAAAATAAACTG
1 ATAAAACTATTTAAAAAAATAAACTG
*
49395431 ACAAAA
1 ATAAAA
49395437 AAAAAGTGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 18 0.62
26 11 0.38
ACGTcount: A:0.61, C:0.09, G:0.05, T:0.25
Consensus pattern (26 bp):
ATAAAACTATTTAAAAAAATAAACTG
Found at i:49402554 original size:27 final size:27
Alignment explanation
Indices: 49402524--49402582 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
49402514 GGGTGCCGTC
* *
49402524 TATGGGGATGGCGTCACCTGTGCCACT
1 TATGGGGAAGGCGTCACCGGTGCCACT
* **
49402551 TATGGGGAAGGCGTGACCGGTGCTGCT
1 TATGGGGAAGGCGTCACCGGTGCCACT
49402578 TATGG
1 TATGG
49402583 AAAAGGCTTG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.15, C:0.20, G:0.39, T:0.25
Consensus pattern (27 bp):
TATGGGGAAGGCGTCACCGGTGCCACT
Found at i:49403247 original size:21 final size:21
Alignment explanation
Indices: 49403208--49403247 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
49403198 TATAACAATT
*
49403208 TTTTTATAAATAATCATATTA
1 TTTTTATAAATAATAATATTA
49403229 TTTTTAT-AATATATAATAT
1 TTTTTATAAATA-ATAATAT
49403248 GGACACGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTTTATAAATAATAATATTA
Found at i:49403479 original size:22 final size:22
Alignment explanation
Indices: 49403433--49403479 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
49403423 ACATAAATTT
** *
49403433 TTTATAATATAAATTTTTAAGA
1 TTTATAATATAAATTTAGAAAA
*
49403455 TTTATAATATAAGTTTAGAAAA
1 TTTATAATATAAATTTAGAAAA
49403477 TTT
1 TTT
49403480 TTACCATAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (22 bp):
TTTATAATATAAATTTAGAAAA
Found at i:49404642 original size:22 final size:21
Alignment explanation
Indices: 49404617--49404660 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
49404607 TAATGCCAAA
49404617 ATAATAATA-GCATAACATCGTG
1 ATAATAATATG-ATAACA-CGTG
*
49404639 ATAATAGTATGATAACACGTG
1 ATAATAATATGATAACACGTG
49404660 A
1 A
49404661 GAACAATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 14 0.70
23 1 0.05
ACGTcount: A:0.45, C:0.11, G:0.16, T:0.27
Consensus pattern (21 bp):
ATAATAATATGATAACACGTG
Found at i:49404957 original size:42 final size:42
Alignment explanation
Indices: 49404898--49405034 Score: 204
Period size: 42 Copynumber: 3.3 Consensus size: 42
49404888 TAAAAATATC
* *
49404898 AAGGAAGCAACATGGGAAAGCAACATCCATG-TCTAGACAAAA
1 AAGGAAGCAACTTGGGAAAGCAACATCCAAGTTC-AGACAAAA
*
49404940 AAGGAAGCAACTTGGGAAAACAACATCCAAGTTCAGACAAAA
1 AAGGAAGCAACTTGGGAAAGCAACATCCAAGTTCAGACAAAA
* * *
49404982 AAGGAAGCAACTTGGGAAAGCAACATCTAGGTTCAAACAAAA
1 AAGGAAGCAACTTGGGAAAGCAACATCCAAGTTCAGACAAAA
49405024 AAGGAAGCAAC
1 AAGGAAGCAAC
49405035 GTGAAAGTAA
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
42 85 0.98
43 2 0.02
ACGTcount: A:0.49, C:0.18, G:0.21, T:0.12
Consensus pattern (42 bp):
AAGGAAGCAACTTGGGAAAGCAACATCCAAGTTCAGACAAAA
Found at i:49441028 original size:3 final size:3
Alignment explanation
Indices: 49441016--49441104 Score: 58
Period size: 3 Copynumber: 30.0 Consensus size: 3
49441006 AAGAGAAATG
* * * **
49441016 ATA ATAA ATA ATA ATA A-A GT- ATA TACA ATA ATA GTA ATA GCA ATA
1 ATA AT-A ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA
* * * *
49441061 TTA A-A ATA ATA ATA ATA ATA ATA ATA GTA AAA ATA ATG ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
49441105 CTATTGAAAT
Statistics
Matches: 63, Mismatches: 18, Indels: 10
0.69 0.20 0.11
Matches are distributed among these distances:
2 4 0.06
3 54 0.86
4 5 0.08
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:49441080 original size:20 final size:21
Alignment explanation
Indices: 49441021--49441084 Score: 53
Period size: 23 Copynumber: 3.0 Consensus size: 21
49441011 AAATGATAAT
*
49441021 AAATAATAATAA-AGTATATA
1 AAATAATAATAATAATATATA
* *
49441041 CAATAATAGTAATAGCA-ATATTA
1 AAATAATAATAATA--ATATA-TA
49441064 AAATAATAATAATAATA-ATA
1 AAATAATAATAATAATATATA
49441084 A
1 A
49441085 TAGTAAAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 10
0.69 0.10 0.20
Matches are distributed among these distances:
20 13 0.38
21 3 0.09
22 4 0.12
23 14 0.41
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (21 bp):
AAATAATAATAATAATATATA
Found at i:49441763 original size:27 final size:27
Alignment explanation
Indices: 49441711--49441763 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
49441701 ATTAAAATAA
* * *
49441711 AAAACGGAAAAGAAAAATACAGGAAAC
1 AAAACAGAAAAGAAAAATAAAAGAAAC
49441738 AAAACAGAAGAAGAAAAA-AAAAGAAA
1 AAAACAGAA-AAGAAAAATAAAAGAAA
49441764 AACCACCTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 14 0.64
28 8 0.36
ACGTcount: A:0.74, C:0.08, G:0.17, T:0.02
Consensus pattern (27 bp):
AAAACAGAAAAGAAAAATAAAAGAAAC
Found at i:49441803 original size:39 final size:39
Alignment explanation
Indices: 49441751--49441825 Score: 150
Period size: 39 Copynumber: 1.9 Consensus size: 39
49441741 ACAGAAGAAG
49441751 AAAAAAAAAGAAAAACCACCTTCTTTCAAATTTTTTAGA
1 AAAAAAAAAGAAAAACCACCTTCTTTCAAATTTTTTAGA
49441790 AAAAAAAAAGAAAAACCACCTTCTTTCAAATTTTTT
1 AAAAAAAAAGAAAAACCACCTTCTTTCAAATTTTTT
49441826 CTTTTTCGTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.51, C:0.16, G:0.04, T:0.29
Consensus pattern (39 bp):
AAAAAAAAAGAAAAACCACCTTCTTTCAAATTTTTTAGA
Found at i:49442566 original size:132 final size:132
Alignment explanation
Indices: 49442421--49442747 Score: 514
Period size: 132 Copynumber: 2.5 Consensus size: 132
49442411 GATTATTGGA
* * *
49442421 TTAAATCTACTTCCCTACTACTTTGGGAAGATAAGAAT-AGTCGTCTTCGATCTGCTCTC-CTAC
1 TTAAATCTACTTCCCTACTACCTTGGGAAGATAAGATTCA-CCGTCTTCGATCTGCTC-CACTAC
*
49442484 TGCTTAGGGAAACAGGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACCGG
64 TGCTTAGGGAAACAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACCGG
49442549 CGGC
129 CGGC
* *
49442553 TTAAATCTTCTTCCCTACTACCTTGGGAAGATAAGATTCACCGTCTTCAATCTGCTCCACTACTG
1 TTAAATCTACTTCCCTACTACCTTGGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTG
* * ** *
49442618 TTTAGGGAGACAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGATTGGTG
66 CTTAGGGAAACAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACCGGCG
49442683 GC
131 GC
*
49442685 TTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTAC
1 TTAAATCTACTTCCCTACTACCTTGGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTAC
49442748 ACCGCCAGCA
Statistics
Matches: 180, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
131 1 0.01
132 178 0.99
133 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (132 bp):
TTAAATCTACTTCCCTACTACCTTGGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTG
CTTAGGGAAACAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACCGGCG
GC
Found at i:49443014 original size:89 final size:89
Alignment explanation
Indices: 49442817--49443471 Score: 873
Period size: 89 Copynumber: 7.4 Consensus size: 89
49442807 GGCAATAAGA
* * * ** *
49442817 CTGGTGTCTTCGATCTACTTCGCTGCCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTACTC
1 CTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTC
* **** ***
49442882 CACTGC-TGGTCAGGGAAATAAGG
66 CGCTGCAAACCCAGGGAGGCAAGG
* ** * *
49442905 CTGGTGTCCTCGATCTGCTTCATTGTCAGTACAGGAAGGCAAGATCTGTTATTTTCAGTCTGCTC
1 CTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTC
* * **
49442970 TGTTGCAAACCCAGGGAGTTAAGG
66 CGCTGCAAACCCAGGGAGGCAAGG
* * *
49442994 CTGGTGTTTTCGATCTGCTTCGCTGTCAGTACAGAAATGCAAGATCTGCTATCTTCAGTCTGCTC
1 CTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTC
*
49443059 CGCTGCAAACCCAGTGAGGCAAGG
66 CGCTGCAAACCCAGGGAGGCAAGG
* *
49443083 CTGGTGTCTTCAATCTGCTTCGCTGTCAATACAGGAAGGCAAGATCTGCTATCTTCAG-CTTGCT
1 CTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTC-TGCT
*
49443147 CCGCTGCAAACCCAGGGAGGCAAGA
65 CCGCTGCAAACCCAGGGAGGCAAGG
* * * *
49443172 CTAGTGTCTTCGATCTGCTTCACTGTCAATACGGGAAGGCAAGATCTGCTATCTTCAGTCTGCTC
1 CTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTC
49443237 CGCTGCAAACCCAGGGAGGCAAGG
66 CGCTGCAAACCCAGGGAGGCAAGG
* * * * * *
49443261 CTAGTGTCTTTGATCTACTTCGCTGTCAATACAGGAAAGCAAGATCTGCTATCTTCAATCTGCTC
1 CTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTC
* *
49443326 CACTACAAACCCAGGGAGGCAAGG
66 CGCTGCAAACCCAGGGAGGCAAGG
* *
49443350 CCGGTGTCTTCGACCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTC
1 CTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTC
*
49443415 CGCTGCAAACCCAGTGAGGCAAGG
66 CGCTGCAAACCCAGGGAGGCAAGG
*
49443439 CTGGTGTCTTCGATCTGCTTCACTGTCAGTACA
1 CTGGTGTCTTCGATCTGCTTCGCTGTCAGTACA
49443472 AAATTGAATC
Statistics
Matches: 499, Mismatches: 65, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
88 60 0.12
89 438 0.88
90 1 0.00
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (89 bp):
CTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTC
CGCTGCAAACCCAGGGAGGCAAGG
Found at i:49448028 original size:18 final size:18
Alignment explanation
Indices: 49448005--49448039 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
49447995 TTATATAATG
* *
49448005 TTTATATTCTTTTATGAT
1 TTTATATACTATTATGAT
49448023 TTTATATACTATTATGA
1 TTTATATACTATTATGA
49448040 GTCAGATTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.60
Consensus pattern (18 bp):
TTTATATACTATTATGAT
Found at i:49464851 original size:52 final size:48
Alignment explanation
Indices: 49464832--49465139 Score: 335
Period size: 46 Copynumber: 6.3 Consensus size: 48
49464822 TGACAAGTGG
* *
49464832 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
*
49464878 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
*
49464924 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGGAAA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-------AA
49464979 GTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 ----AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
49465035 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
* ** *
49465081 AAAGTGATAAGTAATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
49465127 AAAGTGATAAGTG
1 AAAGTGATAAGTG
49465140 GCTACACTTA
Statistics
Matches: 235, Mismatches: 11, Indels: 32
0.85 0.04 0.12
Matches are distributed among these distances:
46 143 0.61
52 44 0.19
53 2 0.01
56 1 0.00
59 45 0.19
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:49465153 original size:37 final size:37
Alignment explanation
Indices: 49465103--49465285 Score: 316
Period size: 37 Copynumber: 5.0 Consensus size: 37
49465093 AATAGCTTTA
49465103 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
49465140 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
49465177 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
* *
49465214 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
49465251 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
49465286 ATCATACGTA
Statistics
Matches: 139, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
35 11 0.08
36 4 0.03
37 124 0.89
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:49467098 original size:6 final size:6
Alignment explanation
Indices: 49467087--49467191 Score: 123
Period size: 6 Copynumber: 18.0 Consensus size: 6
49467077 AAAATATTCC
*
49467087 AAGAAA AAG--A AA-AAA AAGAAA AAGAAA AAGAAA AAGAAA AA-AGA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA
*
49467131 AA-AAA AAGAAA AAGAACA AAGAACA AAGAAA AA-AGAA AAGAAA AAGGAA
1 AAGAAA AAGAAA AAGAA-A AAGAA-A AAGAAA AAGA-AA AAGAAA AAGAAA
49467180 AAGAAA AAGAAA
1 AAGAAA AAGAAA
49467192 TGAAAGAAGA
Statistics
Matches: 88, Mismatches: 4, Indels: 14
0.83 0.04 0.13
Matches are distributed among these distances:
4 3 0.03
5 12 0.14
6 59 0.67
7 14 0.16
ACGTcount: A:0.82, C:0.02, G:0.16, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:49467108 original size:7 final size:7
Alignment explanation
Indices: 49467090--49467181 Score: 93
Period size: 7 Copynumber: 13.4 Consensus size: 7
49467080 ATATTCCAAG
49467090 AAAAAGA
1 AAAAAGA
*
49467097 AAAAAAA
1 AAAAAGA
49467104 GAAAAAG-
1 -AAAAAGA
49467111 AAAAAG-
1 AAAAAGA
49467117 AAAAAGA
1 AAAAAGA
49467124 AAAAAGA
1 AAAAAGA
*
49467131 AAAAAAA
1 AAAAAGA
49467138 GAAAAAGA
1 -AAAAAGA
*
49467146 ACAAAGA
1 AAAAAGA
*
49467153 ACAAAGA
1 AAAAAGA
49467160 AAAAAG-
1 AAAAAGA
49467166 -AAAAGA
1 AAAAAGA
*
49467172 AAAAGGA
1 AAAAAGA
49467179 AAA
1 AAA
49467182 GAAAAAGAAA
Statistics
Matches: 73, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
5 5 0.07
6 12 0.16
7 45 0.62
8 11 0.15
ACGTcount: A:0.83, C:0.02, G:0.15, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:49467944 original size:15 final size:15
Alignment explanation
Indices: 49467924--49467964 Score: 64
Period size: 16 Copynumber: 2.7 Consensus size: 15
49467914 TGACATTCTG
49467924 CATTCATACAAATAT
1 CATTCATACAAATAT
*
49467939 CATTCAATGCAAATAT
1 CATTC-ATACAAATAT
49467955 CATTCATACA
1 CATTCATACA
49467965 CGTCTAGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 9 0.39
16 14 0.61
ACGTcount: A:0.44, C:0.22, G:0.02, T:0.32
Consensus pattern (15 bp):
CATTCATACAAATAT
Found at i:49468411 original size:100 final size:100
Alignment explanation
Indices: 49468232--49468895 Score: 965
Period size: 100 Copynumber: 6.7 Consensus size: 100
49468222 CCTATCTCTT
* * * * * *
49468232 TGGCATTGCAGTGGAACAGATTAAAGCTAAAATGACAAATCTTGCTTCCTCGACATTTCAATTAA
1 TGGCAGTGCAGTGGAACAGATTGAAGCTACAATGACGAATCTTGCTTCCCCGACATTGCAATTAA
49468297 AAAGATTGAAGCCACAACGGCGAATCTTACTTCCC
66 AAAGATTGAAGCCACAACGGCGAATCTTACTTCCC
* * * * * *
49468332 TGGCGGTGCAGTGGAATAGATTGAAGTTACAACGACGAATCTTGCTTCCCCGACATTACAACTAA
1 TGGCAGTGCAGTGGAACAGATTGAAGCTACAATGACGAATCTTGCTTCCCCGACATTGCAATTAA
* *
49468397 AAAGATTGAAGCCACAACGACAAATCTTACTTCCC
66 AAAGATTGAAGCCACAACGGCGAATCTTACTTCCC
** *
49468432 TGG-AGGTGCAGTGGAACAGATTGAAGCTACAGCGACGAATCTTGCTTCCTCGACATTGCAATTA
1 TGGCA-GTGCAGTGGAACAGATTGAAGCTACAATGACGAATCTTGCTTCCCCGACATTGCAATTA
*
49468496 AAAAGATTGAAGCCACAACGACGAATCTTACTTCCC
65 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCC
* *
49468532 TGGCAGTGCAGTGGAACAGATTGAAGCTATAATGGCGAATCTTGCTTCCCCGACATTGCAATT-A
1 TGGCAGTGCAGTGGAACAGATTGAAGCTACAATGACGAATCTTGCTTCCCCGACATTGCAATTAA
*
49468596 AAAGATTGAAGCCACAACGGCGAATTTTACTTCCC
66 AAAGATTGAAGCCACAACGGCGAATCTTACTTCCC
* * *
49468631 TGGCGGTGCAGTGGAACAGATTGAAGCTATAATGGCGAATCTTGCTTCCCCGACATTGCAATTAA
1 TGGCAGTGCAGTGGAACAGATTGAAGCTACAATGACGAATCTTGCTTCCCCGACATTGCAATTAA
* **
49468696 AAAGATTGAAGCCACAATGGTAAATCTTACTTCCC
66 AAAGATTGAAGCCACAACGGCGAATCTTACTTCCC
* * **
49468731 TAGCAGTGCAGTGGAATAGATTGAAGCTACAATGGTGAATCTTGCTTCCCCGACATTGCAATTAA
1 TGGCAGTGCAGTGGAACAGATTGAAGCTACAATGACGAATCTTGCTTCCCCGACATTGCAATTAA
*
49468796 AAAGATTGAAGCCACAACGGAGAATCTTACTTCCC
66 AAAGATTGAAGCCACAACGGCGAATCTTACTTCCC
** * *
49468831 TAACAGTGCAGTGGAACAGATTGAAGCTACAAT-AGCGAATCTTACTTCCCCGACATTGCAGTTA
1 TGGCAGTGCAGTGGAACAGATTGAAGCTACAATGA-CGAATCTTGCTTCCCCGACATTGCAATTA
49468895 A
65 A
49468896 TTAGACTGAA
Statistics
Matches: 513, Mismatches: 47, Indels: 8
0.90 0.08 0.01
Matches are distributed among these distances:
99 96 0.19
100 416 0.81
101 1 0.00
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (100 bp):
TGGCAGTGCAGTGGAACAGATTGAAGCTACAATGACGAATCTTGCTTCCCCGACATTGCAATTAA
AAAGATTGAAGCCACAACGGCGAATCTTACTTCCC
Found at i:49468777 original size:299 final size:299
Alignment explanation
Indices: 49468232--49468895 Score: 1008
Period size: 299 Copynumber: 2.2 Consensus size: 299
49468222 CCTATCTCTT
* * * * * *
49468232 TGGCATTGCAGTGGAACAGATTAAAGCTAAAATGACAAATCTTGCTTCCTCGACATTTCAATTAA
1 TGGCAGTGCAGTGGAACAGATTGAAGCTAAAATGGCGAATCTTGCTTCCCCGACATTGCAATT-A
* *
49468297 AAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAATAGATTGAAGTTAC
65 AAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTAC
49468362 AACGACGAATCTTGCTTCCCCGACATTACAACTAAAAAGATTGAAGCCACAACGACAAATCTTAC
130 AACGACGAATCTTGCTTCCCCGACATTACAACTAAAAAGATTGAAGCCACAACGACAAATCTTAC
* * *
49468427 TTCCCTGGAGGTGCAGTGGAACAGATTGAAGCTACAGCGACGAATCTTGCTTCCTCGACATTGCA
195 TTCCCTGCAGGTGCAGTGGAACAGATTGAAGCTACAACGACGAATCTTGCTTCCCCGACATTGCA
49468492 ATTAAAAAGATTGAAGCCACAAC-GACGAATCTTACTTCCC
260 ATTAAAAAGATTGAAGCCACAACGGA-GAATCTTACTTCCC
*
49468532 TGGCAGTGCAGTGGAACAGATTGAAGCTATAATGGCGAATCTTGCTTCCCCGACATTGCAATTAA
1 TGGCAGTGCAGTGGAACAGATTGAAGCTAAAATGGCGAATCTTGCTTCCCCGACATTGCAATTAA
* *
49468597 AAGATTGAAGCCACAACGGCGAATTTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTATA
66 AAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACA
* * * * * **
49468662 ATGGCGAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAATGGTAAATCTTACT
131 ACGACGAATCTTGCTTCCCCGACATTACAACTAAAAAGATTGAAGCCACAACGACAAATCTTACT
* * **
49468727 TCCCTAGCA-GTGCAGTGGAATAGATTGAAGCTACAATGGTGAATCTTGCTTCCCCGACATTGCA
196 TCCCT-GCAGGTGCAGTGGAACAGATTGAAGCTACAACGACGAATCTTGCTTCCCCGACATTGCA
49468791 ATTAAAAAGATTGAAGCCACAACGGAGAATCTTACTTCCC
260 ATTAAAAAGATTGAAGCCACAACGGAGAATCTTACTTCCC
** * * * *
49468831 TAACAGTGCAGTGGAACAGATTGAAGCTACAATAGCGAATCTTACTTCCCCGACATTGCAGTTAA
1 TGGCAGTGCAGTGGAACAGATTGAAGCTAAAATGGCGAATCTTGCTTCCCCGACATTGCAATTAA
49468896 TTAGACTGAA
Statistics
Matches: 331, Mismatches: 31, Indels: 5
0.90 0.08 0.01
Matches are distributed among these distances:
299 271 0.82
300 60 0.18
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (299 bp):
TGGCAGTGCAGTGGAACAGATTGAAGCTAAAATGGCGAATCTTGCTTCCCCGACATTGCAATTAA
AAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACA
ACGACGAATCTTGCTTCCCCGACATTACAACTAAAAAGATTGAAGCCACAACGACAAATCTTACT
TCCCTGCAGGTGCAGTGGAACAGATTGAAGCTACAACGACGAATCTTGCTTCCCCGACATTGCAA
TTAAAAAGATTGAAGCCACAACGGAGAATCTTACTTCCC
Found at i:49468891 original size:50 final size:50
Alignment explanation
Indices: 49468235--49468892 Score: 505
Period size: 50 Copynumber: 13.2 Consensus size: 50
49468225 ATCTCTTTGG
* * * * * * *
49468235 CATTGCAGTGGAACAGATTAAAGCTAAAATGACAAATCTTGCTTCCTCGA
1 CATTGCAGTGGAAAAGATTGAAGCTACAATGGCGAATCTTACTTCCCCGA
* * ** * * * *
49468285 CATTTCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGG
1 CATTGCAGTGGAAAAGATTGAAGCTACAATGGCGAATCTTACTTCCCCGA
** * * * * *
49468335 CGGTGCAGTGGAATAGATTGAAGTTACAACGACGAATCTTGCTTCCCCGA
1 CATTGCAGTGGAAAAGATTGAAGCTACAATGGCGAATCTTACTTCCCCGA
* * * * * * * *
49468385 CATTACAACT-AAAAAGATTGAAGCCACAACGACAAATCTTACTTCCCTGGA
1 CATTGC-AGTGGAAAAGATTGAAGCTACAATGGCGAATCTTACTTCCC-CGA
** * ** * * *
49468436 -GGTGCAGTGGAACAGATTGAAGCTACAGCGACGAATCTTGCTTCCTCGA
1 CATTGCAGTGGAAAAGATTGAAGCTACAATGGCGAATCTTACTTCCCCGA
* ** * * * * *
49468485 CATTGCAATTAAAAAGATTGAAGCCACAACGACGAATCTTACTTCCCTGG
1 CATTGCAGTGGAAAAGATTGAAGCTACAATGGCGAATCTTACTTCCCCGA
* * * *
49468535 CAGTGCAGTGGAACAGATTGAAGCTATAATGGCGAATCTTGCTTCCCCGA
1 CATTGCAGTGGAAAAGATTGAAGCTACAATGGCGAATCTTACTTCCCCGA
* * * * * * *
49468585 CATTGCAAT-TAAAAGATTGAAGCCACAACGGCGAATTTTACTTCCCTGG
1 CATTGCAGTGGAAAAGATTGAAGCTACAATGGCGAATCTTACTTCCCCGA
** * * *
49468634 CGGTGCAGTGGAACAGATTGAAGCTATAATGGCGAATCTTGCTTCCCCGA
1 CATTGCAGTGGAAAAGATTGAAGCTACAATGGCGAATCTTACTTCCCCGA
* ** * ** *
49468684 CATTGCAATTAAAAAGATTGAAGCCACAATGGTAAATCTTACTT-CCCTA
1 CATTGCAGTGGAAAAGATTGAAGCTACAATGGCGAATCTTACTTCCCCGA
* * * *
49468733 GCAGTGCAGTGGAATAGATTGAAGCTACAATGGTGAATCTTGCTTCCCCGA
1 -CATTGCAGTGGAAAAGATTGAAGCTACAATGGCGAATCTTACTTCCCCGA
* ** * * * **
49468784 CATTGCAATTAAAAAGATTGAAGCCACAACGGAGAATCTTACTTCCCTAA
1 CATTGCAGTGGAAAAGATTGAAGCTACAATGGCGAATCTTACTTCCCCGA
* * *
49468834 CAGTGCAGTGGAACAGATTGAAGCTACAATAGCGAATCTTACTTCCCCGA
1 CATTGCAGTGGAAAAGATTGAAGCTACAATGGCGAATCTTACTTCCCCGA
49468884 CATTGCAGT
1 CATTGCAGT
49468893 TAATTAGACT
Statistics
Matches: 459, Mismatches: 142, Indels: 14
0.75 0.23 0.02
Matches are distributed among these distances:
49 45 0.10
50 406 0.88
51 8 0.02
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (50 bp):
CATTGCAGTGGAAAAGATTGAAGCTACAATGGCGAATCTTACTTCCCCGA
Found at i:49469125 original size:44 final size:46
Alignment explanation
Indices: 49469008--49469125 Score: 136
Period size: 47 Copynumber: 2.6 Consensus size: 46
49468998 CATATCAGGT
* *
49469008 CTTATC-CTCCTGAAGTTGCAGTGGGGCAGACTGAAGATAGCGAGC
1 CTTATCTCTCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAGC
** * *
49469053 CTTATCTCTTTTTGAAGTTGCAGTGGAGCAGACTGAAGCTA-CTAATC
1 CTTATCTC-TCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGC-AAGC
49469100 C-TATCTC-CCTGAAGTTGCAGTGGAGC
1 CTTATCTCTCCTGAAGTTGCAGTGGAGC
49469126 GGATTAAAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
44 17 0.27
45 6 0.10
46 8 0.13
47 31 0.50
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (46 bp):
CTTATCTCTCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAGC
Found at i:49470913 original size:19 final size:19
Alignment explanation
Indices: 49470889--49470925 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
49470879 TAAATTTGAT
49470889 ATTATTATTGTTATTATTA
1 ATTATTATTGTTATTATTA
* *
49470908 ATTATTGTTGTTGTTATT
1 ATTATTATTGTTATTATT
49470926 TACTCATTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.11, T:0.65
Consensus pattern (19 bp):
ATTATTATTGTTATTATTA
Found at i:49471464 original size:2 final size:2
Alignment explanation
Indices: 49471457--49471483 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
49471447 TGATTGATTT
49471457 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 T
49471484 TTTTGTCTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:49475718 original size:2 final size:2
Alignment explanation
Indices: 49475711--49475737 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
49475701 TTTGTCTTAA
49475711 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
49475738 AGATTATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:49484243 original size:31 final size:30
Alignment explanation
Indices: 49484194--49484260 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 30
49484184 ATATAGATTT
* *
49484194 TAATTTGGTGCAATTATATACGTGAAACTC
1 TAATTTGGTGCAAATATATACGTAAAACTC
* * *
49484224 TAATTGTGGTTCAAATATATACTTAAAACTT
1 TAATT-TGGTGCAAATATATACGTAAAACTC
49484255 TAATTT
1 TAATTT
49484261 TGATTTAATC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 6 0.19
31 25 0.81
ACGTcount: A:0.36, C:0.10, G:0.12, T:0.42
Consensus pattern (30 bp):
TAATTTGGTGCAAATATATACGTAAAACTC
Found at i:49497537 original size:2 final size:2
Alignment explanation
Indices: 49497530--49497569 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
49497520 TTTAATTTGC
49497530 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
49497570 TGTGAATATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:49510630 original size:34 final size:34
Alignment explanation
Indices: 49510587--49510657 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
49510577 ACTCACAAAA
49510587 GCATAAACTACTTTCTTAATTAATCTAAGGGAAT
1 GCATAAACTACTTTCTTAATTAATCTAAGGGAAT
49510621 GCATAAACTACTTTCTTAATTAATCTAAGGGAAT
1 GCATAAACTACTTTCTTAATTAATCTAAGGGAAT
49510655 GCA
1 GCA
49510658 AAGATATCAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (34 bp):
GCATAAACTACTTTCTTAATTAATCTAAGGGAAT
Found at i:49516662 original size:2 final size:2
Alignment explanation
Indices: 49516655--49516710 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
49516645 ATACAAATAA
49516655 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
49516697 GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT
49516711 CAGATACGTA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Found at i:49520785 original size:14 final size:15
Alignment explanation
Indices: 49520752--49520785 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
49520742 ATCTATTAGG
49520752 GTTAATAATAAGTCA
1 GTTAATAATAAGTCA
49520767 G-TAATAAT-AGTCA
1 GTTAATAATAAGTCA
49520780 GTTAAT
1 GTTAAT
49520786 TAGAGGGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 6 0.33
14 11 0.61
15 1 0.06
ACGTcount: A:0.44, C:0.06, G:0.15, T:0.35
Consensus pattern (15 bp):
GTTAATAATAAGTCA
Found at i:49528605 original size:3 final size:3
Alignment explanation
Indices: 49528592--49528631 Score: 71
Period size: 3 Copynumber: 13.0 Consensus size: 3
49528582 GTTTTAAAAT
49528592 TAA TAAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
49528632 ACAACCAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:49528732 original size:18 final size:19
Alignment explanation
Indices: 49528682--49528736 Score: 55
Period size: 18 Copynumber: 3.0 Consensus size: 19
49528672 TAAAACATAA
49528682 AAATTAATTTATAAAAATTC
1 AAATTAATTTATAAAAA-TC
*
49528702 AAA--AA-TAATTAAAAA-C
1 AAATTAATTTA-TAAAAATC
49528718 AAATTAATTTATAAAAATC
1 AAATTAATTTATAAAAATC
49528737 TAAACATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 11
0.68 0.05 0.27
Matches are distributed among these distances:
16 4 0.14
17 2 0.07
18 16 0.57
19 3 0.11
20 3 0.11
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (19 bp):
AAATTAATTTATAAAAATC
Found at i:49528850 original size:20 final size:18
Alignment explanation
Indices: 49528808--49528850 Score: 50
Period size: 20 Copynumber: 2.3 Consensus size: 18
49528798 TTGGTTTATA
49528808 TAAATTAAAATAAATAAT
1 TAAATTAAAATAAATAAT
* *
49528826 AAAATCTAAACATATATAAT
1 TAAAT-TAAA-ATAAATAAT
49528846 TAAAT
1 TAAAT
49528851 AATTAATTAC
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 4 0.20
19 4 0.20
20 12 0.60
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.33
Consensus pattern (18 bp):
TAAATTAAAATAAATAAT
Found at i:49529685 original size:13 final size:13
Alignment explanation
Indices: 49529651--49529683 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
49529641 ATAAAAAGTG
*
49529651 ATTTTATTAATAT
1 ATTTTTTTAATAT
49529664 ATTTTTTTAATA-
1 ATTTTTTTAATAT
49529676 ATTTTTTT
1 ATTTTTTT
49529684 TATTTTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
ATTTTTTTAATAT
Found at i:49531938 original size:14 final size:14
Alignment explanation
Indices: 49531901--49531938 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
49531891 TTAACATTTA
*
49531901 TTTTTAAAATAAAC
1 TTTTTAATATAAAC
49531915 TTATTT-ATATAAAC
1 TT-TTTAATATAAAC
49531929 TTTTTAATAT
1 TTTTTAATAT
49531939 TTTTTACATA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
13 3 0.14
14 15 0.71
15 3 0.14
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (14 bp):
TTTTTAATATAAAC
Found at i:49536498 original size:6 final size:6
Alignment explanation
Indices: 49536482--49536521 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
49536472 GCAGATATGG
* *
49536482 TTTTA- TTTTAC TTTTAC TTTTAC TTTTAT TTTTAA TTTTA
1 TTTTAC TTTTAC TTTTAC TTTTAC TTTTAC TTTTAC TTTTA
49536522 GTCTTGTTCT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
5 5 0.16
6 27 0.84
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.72
Consensus pattern (6 bp):
TTTTAC
Found at i:49542399 original size:29 final size:28
Alignment explanation
Indices: 49542358--49542417 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
49542348 TATTTATAAA
*
49542358 TTTTAAAAGATTAAATTA-AATTATTATAT
1 TTTTAAAAGATTAAAGTATAATT-TTAT-T
* *
49542387 TTTTAAGATATTAAAGTATAATTTTATT
1 TTTTAAAAGATTAAAGTATAATTTTATT
49542415 TTT
1 TTT
49542418 ATTAATTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 4 0.15
29 19 0.70
30 4 0.15
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (28 bp):
TTTTAAAAGATTAAAGTATAATTTTATT
Found at i:49562422 original size:37 final size:37
Alignment explanation
Indices: 49562372--49562444 Score: 110
Period size: 37 Copynumber: 2.0 Consensus size: 37
49562362 TTTTCGATTT
**
49562372 TAATTACACAAAATATTATTTAATTATATAAATTATA
1 TAATTACACAAAATATTATCCAATTATATAAATTATA
**
49562409 TAATTACGGAAAATATTATCCAATTATATAAATTAT
1 TAATTACACAAAATATTATCCAATTATATAAATTAT
49562445 TACAGATTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.49, C:0.07, G:0.03, T:0.41
Consensus pattern (37 bp):
TAATTACACAAAATATTATCCAATTATATAAATTATA
Found at i:49562445 original size:20 final size:18
Alignment explanation
Indices: 49562386--49562446 Score: 54
Period size: 17 Copynumber: 3.4 Consensus size: 18
49562376 TACACAAAAT
49562386 ATTATT-TAATTATATAA
1 ATTATTATAATTATATAA
***
49562403 ATTA-TATAATTACGGAA
1 ATTATTATAATTATATAA
*
49562420 AATATTATCCAATTATATAA
1 ATTATTAT--AATTATATAA
49562440 ATTATTA
1 ATTATTA
49562447 CAGATTTCAT
Statistics
Matches: 32, Mismatches: 8, Indels: 5
0.71 0.18 0.11
Matches are distributed among these distances:
16 1 0.03
17 15 0.47
18 3 0.09
20 13 0.41
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (18 bp):
ATTATTATAATTATATAA
Found at i:49565549 original size:52 final size:52
Alignment explanation
Indices: 49565471--49565574 Score: 208
Period size: 52 Copynumber: 2.0 Consensus size: 52
49565461 ACAAGAAGAG
49565471 AATGAGAATCTACTTGACAAGGTGAGCCTTTATCATTACTGTTGTGTTATCT
1 AATGAGAATCTACTTGACAAGGTGAGCCTTTATCATTACTGTTGTGTTATCT
49565523 AATGAGAATCTACTTGACAAGGTGAGCCTTTATCATTACTGTTGTGTTATCT
1 AATGAGAATCTACTTGACAAGGTGAGCCTTTATCATTACTGTTGTGTTATCT
49565575 GCAACATGTA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.38
Consensus pattern (52 bp):
AATGAGAATCTACTTGACAAGGTGAGCCTTTATCATTACTGTTGTGTTATCT
Found at i:49572414 original size:16 final size:16
Alignment explanation
Indices: 49572393--49572426 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
49572383 TCATATAAAA
49572393 TCGGATCATGGCTTCT
1 TCGGATCATGGCTTCT
*
49572409 TCGGATCATGTCTTCT
1 TCGGATCATGGCTTCT
49572425 TC
1 TC
49572427 CATACCATCT
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:0.12, C:0.26, G:0.21, T:0.41
Consensus pattern (16 bp):
TCGGATCATGGCTTCT
Found at i:49573982 original size:20 final size:20
Alignment explanation
Indices: 49573957--49573994 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
49573947 ATATGAAAAT
* *
49573957 TAAATTAATTCATTTAATAA
1 TAAATTAACTAATTTAATAA
49573977 TAAATTAACTAATTTAAT
1 TAAATTAACTAATTTAAT
49573995 CTAACCCCTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (20 bp):
TAAATTAACTAATTTAATAA
Found at i:49574661 original size:15 final size:15
Alignment explanation
Indices: 49574641--49574714 Score: 59
Period size: 15 Copynumber: 4.9 Consensus size: 15
49574631 AATGCATAGA
49574641 ATAATATTATAATAT
1 ATAATATTATAATAT
49574656 ATAATATTACT--TA-
1 ATAATATTA-TAATAT
49574669 A-AATATTAATACATAT
1 ATAATATT-ATA-ATAT
*
49574685 ATAACTATTATTATAAT
1 ATAA-TATTATAAT-AT
49574702 ATAA-ATTATAATA
1 ATAATATTATAATA
49574715 AAAGATATAA
Statistics
Matches: 48, Mismatches: 2, Indels: 19
0.70 0.03 0.28
Matches are distributed among these distances:
12 7 0.15
13 2 0.04
14 3 0.06
15 18 0.38
16 4 0.08
17 10 0.21
18 4 0.08
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (15 bp):
ATAATATTATAATAT
Found at i:49575111 original size:230 final size:229
Alignment explanation
Indices: 49574829--49575250 Score: 657
Period size: 230 Copynumber: 1.8 Consensus size: 229
49574819 ATATCATACA
* * *
49574829 ATATAGTAGGAGGGCTAACTTTTAAATGTACGAAAAGTATAGAGACTTAGAGCATATTTCAACTA
1 ATATAATAGGAAGGCTAACTTTCAAATGTACGAAAAGTATAGAGACTTAGAGCATATTTCAACTA
* * *
49574894 GTATAATAACAAATAATAACATTATAATAATTAATATATAATGTAGTACTATTATATAACTATTA
66 GTACAATAACAAATAATAACATTATAATAATTAATATATAATATACTACTATTATATAACTATTA
* * *
49574959 TTATATTATAGATTATAATAAAAGATATAATATTGCATAATATTATAATGTTTAATCATTGATAC
131 TTATATTATAGATGACAATAAAAGATATAAT-TTACATAATATTATAATGTTTAATCATTGATAC
49575024 ATATTATATATAAACTATTAATATTGCATTATATT
195 ATATTATATATAAACTATTAATATTGCATTATATT
* * *
49575059 ATATAATAGGAAGGTTAACTTTCAAATGTACGTAAAA-TATAGAGATTTAGAGCATATTTTAACT
1 ATATAATAGGAAGGCTAACTTTCAAATGTACG-AAAAGTATAGAGACTTAGAGCATATTTCAACT
*
49575123 AGTACAATAACAAATAATAATATTATAATAATTAATATATAATATACTACTATTATATAACTATT
65 AGTACAATAACAAATAATAACATTATAATAATTAATATATAATATACTACTATTATATAACTATT
* * * * *
49575188 ATTTTATTATAGATGACAATAAAATATATAGTTTACATGATATTATAATGTTTGATCATTGAT
130 ATTATATTATAGATGACAATAAAAGATATAATTTACATAATATTATAATGTTTAATCATTGAT
49575251 GCATGTATAA
Statistics
Matches: 173, Mismatches: 18, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
229 28 0.16
230 141 0.82
231 4 0.02
ACGTcount: A:0.45, C:0.07, G:0.09, T:0.39
Consensus pattern (229 bp):
ATATAATAGGAAGGCTAACTTTCAAATGTACGAAAAGTATAGAGACTTAGAGCATATTTCAACTA
GTACAATAACAAATAATAACATTATAATAATTAATATATAATATACTACTATTATATAACTATTA
TTATATTATAGATGACAATAAAAGATATAATTTACATAATATTATAATGTTTAATCATTGATACA
TATTATATATAAACTATTAATATTGCATTATATT
Found at i:49576133 original size:16 final size:18
Alignment explanation
Indices: 49576112--49576144 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
49576102 CATAAAATCT
49576112 TATTAA-AAAAT-TTATA
1 TATTAATAAAATATTATA
49576128 TATTAATAAAATATTAT
1 TATTAATAAAATATTAT
49576145 TTTTTAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 5 0.33
18 4 0.27
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
TATTAATAAAATATTATA
Found at i:49576284 original size:28 final size:28
Alignment explanation
Indices: 49576227--49576292 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 28
49576217 TATTTTGGAC
* *
49576227 TTGAGATTTGGGCTATAATTAATTTATT
1 TTGAGATTTGGGCTATAATGAATATATT
49576255 TTGAG-TTTGGG-TAATAATGAATATATTT
1 TTGAGATTTGGGCT-ATAATGAATATA-TT
*
49576283 TTTAGATTTG
1 TTGAGATTTG
49576293 ACTTTGTATA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
26 1 0.03
27 16 0.50
28 11 0.34
29 4 0.12
ACGTcount: A:0.29, C:0.02, G:0.20, T:0.50
Consensus pattern (28 bp):
TTGAGATTTGGGCTATAATGAATATATT
Found at i:49584746 original size:21 final size:21
Alignment explanation
Indices: 49584722--49584789 Score: 102
Period size: 21 Copynumber: 3.3 Consensus size: 21
49584712 AGAAGTGTCT
*
49584722 GTTAGTAGTTAGTAGTTAGTA
1 GTTAGTAGTTAGCAGTTAGTA
49584743 GTTAGTAGTTAGCAGTTAGTA
1 GTTAGTAGTTAGCAGTTAGTA
* *
49584764 GTTAGTAGTTATCAGTT-GTG
1 GTTAGTAGTTAGCAGTTAGTA
49584784 GTTAGT
1 GTTAGT
49584790 TACAACAGTA
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
20 8 0.18
21 36 0.82
ACGTcount: A:0.25, C:0.03, G:0.29, T:0.43
Consensus pattern (21 bp):
GTTAGTAGTTAGCAGTTAGTA
Found at i:49584780 original size:7 final size:7
Alignment explanation
Indices: 49584722--49584774 Score: 97
Period size: 7 Copynumber: 7.6 Consensus size: 7
49584712 AGAAGTGTCT
49584722 GTTAGTA
1 GTTAGTA
49584729 GTTAGTA
1 GTTAGTA
49584736 GTTAGTA
1 GTTAGTA
49584743 GTTAGTA
1 GTTAGTA
*
49584750 GTTAGCA
1 GTTAGTA
49584757 GTTAGTA
1 GTTAGTA
49584764 GTTAGTA
1 GTTAGTA
49584771 GTTA
1 GTTA
49584775 TCAGTTGTGG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 44 1.00
ACGTcount: A:0.28, C:0.02, G:0.28, T:0.42
Consensus pattern (7 bp):
GTTAGTA
Found at i:49586530 original size:140 final size:140
Alignment explanation
Indices: 49586278--49586557 Score: 524
Period size: 140 Copynumber: 2.0 Consensus size: 140
49586268 CTTCTACGCA
*
49586278 TTTAGAATGTGTTGCATGTTCCTGCAGTATGCAAGAACTTGATGTTTGTGGGTCAGTTTGCCAAA
1 TTTAGAATGTGTTGCATGTTCCTGCAGTATGCAAGAACTTGATGTCTGTGGGTCAGTTTGCCAAA
*
49586343 GATAATAATGTTTATTTTGAGTTTCACCCGGTTCTATATTTTGTGAATGACATACAGACAAGGAA
66 GATAATAATGTTTATTTTGAGTTTCACCCGGTTCTATAGTTTGTGAATGACATACAGACAAGGAA
49586408 GACACTGCTC
131 GACACTGCTC
49586418 TTTAGAATGTGTTGCATGTTCCTGCAGTATGCAAGAACTTGATGTCTGTGGGTCAGTTTGCCAAA
1 TTTAGAATGTGTTGCATGTTCCTGCAGTATGCAAGAACTTGATGTCTGTGGGTCAGTTTGCCAAA
*
49586483 GATAATAATGTTTATTTTGAGTTTCACCCGGTTCTATAGTTTGTGAATGACATACAGACAATGAA
66 GATAATAATGTTTATTTTGAGTTTCACCCGGTTCTATAGTTTGTGAATGACATACAGACAAGGAA
*
49586548 GATACTGCTC
131 GACACTGCTC
49586558 GAGGGCCACA
Statistics
Matches: 136, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
140 136 1.00
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.36
Consensus pattern (140 bp):
TTTAGAATGTGTTGCATGTTCCTGCAGTATGCAAGAACTTGATGTCTGTGGGTCAGTTTGCCAAA
GATAATAATGTTTATTTTGAGTTTCACCCGGTTCTATAGTTTGTGAATGACATACAGACAAGGAA
GACACTGCTC
Found at i:49601130 original size:120 final size:121
Alignment explanation
Indices: 49600992--49601404 Score: 687
Period size: 120 Copynumber: 3.4 Consensus size: 121
49600982 AATTATTTTA
* * * *
49600992 AATTTTATTAAATCATATATTTTAAATGA-AATATA-TGATATATTAATTAT-TTCAAATTT-TC
1 AATTTTATTAAATTATATATTTT-AATTATAATATATTTA-ATAATAATTATGTTC-AATTTAT-
*
49601053 A-TTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
62 ATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
49601112 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTC-ATTTATATTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTCAATTTATATTT
49601176 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
49601232 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AATTTATATTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTCAATTTATATTT
*
49601296 TACAGTATCATATATTATGATTTGAGTTAATTCATATAAGAATATTAATTATTAAG
66 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
49601352 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
49601405 TAAATATGAT
Statistics
Matches: 281, Mismatches: 6, Indels: 12
0.94 0.02 0.04
Matches are distributed among these distances:
119 9 0.03
120 267 0.95
121 5 0.02
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (121 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTCAATTTATATTT
TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:49601152 original size:15 final size:15
Alignment explanation
Indices: 49601117--49601158 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
49601107 TTAAGAATTT
*
49601117 TATTAAATTAT-ATA
1 TATTTAATTATAATA
49601131 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
49601145 TATTTAATAATAAT
1 TATTTAATTATAAT
49601159 TATGTTCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:49601272 original size:15 final size:15
Alignment explanation
Indices: 49601237--49601288 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
49601227 TTAAGAATTT
*
49601237 TATTAAATTAT-ATA
1 TATTTAATTATAATA
49601251 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
49601265 TATTTAATAATAAT-
1 TATTTAATTATAATA
49601279 TATGTTAATT
1 TAT-TTAATT
49601289 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:49601327 original size:39 final size:39
Alignment explanation
Indices: 49601166--49601332 Score: 103
Period size: 39 Copynumber: 4.2 Consensus size: 39
49601156 AATTATGTTC
*
49601166 ATTTATATTTTACAGTATCATATATTATGATTTGAGTAA
1 ATTTATATTTTACAGTATCATATATTATGATTTGAGTTA
* * * * * * *
49601205 ATTCATA--TAAGAATATTA-ATTATTAAGAATTTTA-TTAA
1 ATTTATATTTTACAGTATCATA-TATTATG-ATTTGAGTT-A
* * *
49601243 ATTATATATTTTA-ATTATAATATATTTAATAATAATT-ATGTTA
1 ATT-TATATTTTACAGTATCATATA-TT-ATGAT--TTGA-GTTA
49601286 ATTTATATTTTACAGTATCATATATTATGATTTGAGTTA
1 ATTTATATTTTACAGTATCATATATTATGATTTGAGTTA
*
49601325 ATTCATAT
1 ATTTATAT
49601333 AAGAATATTA
Statistics
Matches: 95, Mismatches: 18, Indels: 30
0.66 0.13 0.21
Matches are distributed among these distances:
36 1 0.01
37 14 0.15
38 9 0.09
39 22 0.23
40 8 0.08
41 11 0.12
42 13 0.14
43 15 0.16
44 2 0.02
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.50
Consensus pattern (39 bp):
ATTTATATTTTACAGTATCATATATTATGATTTGAGTTA
Found at i:49601353 original size:16 final size:18
Alignment explanation
Indices: 49601322--49601354 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
49601312 ATGATTTGAG
49601322 TTAATTCATATAAGAATA
1 TTAATTCATATAAGAATA
49601340 TTAATT-AT-TAAGAAT
1 TTAATTCATATAAGAAT
49601355 TTTATTAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 2 0.13
18 6 0.40
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.42
Consensus pattern (18 bp):
TTAATTCATATAAGAATA
Found at i:49601387 original size:16 final size:16
Alignment explanation
Indices: 49601366--49601407 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
49601356 TTATTAAATT
*
49601366 ATATATTTTAATTATA
1 ATATATTTTAATAATA
49601382 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
49601397 AT-TATGTTTAA
1 ATATAT-TTTAA
49601408 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:49601392 original size:15 final size:15
Alignment explanation
Indices: 49601357--49601398 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
49601347 TTAAGAATTT
*
49601357 TATTAAATTAT-ATA
1 TATTTAATTATAATA
49601371 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
49601385 TATTTAATAATAAT
1 TATTTAATTATAAT
49601399 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:49601517 original size:159 final size:157
Alignment explanation
Indices: 49601341--49601659 Score: 575
Period size: 159 Copynumber: 2.0 Consensus size: 157
49601331 ATAAGAATAT
*
49601341 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
* *
49601406 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
49601471 TAAAATAATTTACCAAAACAAATTTCTGC
131 T--AATAATTTACCAAAACAAATTTATGC
49601500 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
49601565 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
49601630 TAATCATTTACCAAAACAAATTTATGC
131 TAATAATTTACCAAAACAAATTTATGC
49601657 TAA
1 TAA
49601660 GGGTATTCTA
Statistics
Matches: 155, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
157 27 0.17
159 128 0.83
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTATGC
Found at i:49601540 original size:18 final size:17
Alignment explanation
Indices: 49601512--49601546 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
49601502 ATTATTAAGA
*
49601512 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
49601529 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
49601547 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:49602203 original size:5 final size:5
Alignment explanation
Indices: 49602193--49602218 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
49602183 AAGTGATATT
49602193 AAATA AAATA AAATA AAATA AAATA A
1 AAATA AAATA AAATA AAATA AAATA A
49602219 TCTATTATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:49603090 original size:25 final size:25
Alignment explanation
Indices: 49603057--49603158 Score: 145
Period size: 25 Copynumber: 4.1 Consensus size: 25
49603047 CAGACACACC
*
49603057 ACAACTCGCATGAGCTTCCGGTTAT
1 ACAACTCGCATGAGCTTCCCGTTAT
49603082 ACAGA-TCGCATGAGCTTCCCGTTAT
1 ACA-ACTCGCATGAGCTTCCCGTTAT
49603107 ACAACTCGCATGAGCTTCCCGTTAT
1 ACAACTCGCATGAGCTTCCCGTTAT
* * *
49603132 TCAACTCGGAGGAGCTTCCCGTT-T
1 ACAACTCGCATGAGCTTCCCGTTAT
49603156 ACA
1 ACA
49603159 GCTCCTATGA
Statistics
Matches: 70, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
24 4 0.06
25 65 0.93
26 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (25 bp):
ACAACTCGCATGAGCTTCCCGTTAT
Found at i:49606605 original size:20 final size:22
Alignment explanation
Indices: 49606582--49606623 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
49606572 AATATTGCCA
49606582 AAAATTTT-AT-AATTATTTTT
1 AAAATTTTAATAAATTATTTTT
49606602 AAAATTTTGAATAAATTATTTT
1 AAAATTTT-AATAAATTATTTT
49606624 ATTTCTAGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.42
22 2 0.11
23 9 0.47
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
AAAATTTTAATAAATTATTTTT
Found at i:49612136 original size:27 final size:27
Alignment explanation
Indices: 49612106--49612159 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
49612096 AAAACTTATA
*
49612106 TATATAATTATCATT-TTTTTAATTTTT
1 TATATAATTATAATTATTTTT-ATTTTT
*
49612133 TATATTATTATAATTATTTTTATTTTT
1 TATATAATTATAATTATTTTTATTTTT
49612160 ATCTGAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 19 0.79
28 5 0.21
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.69
Consensus pattern (27 bp):
TATATAATTATAATTATTTTTATTTTT
Found at i:49618912 original size:126 final size:125
Alignment explanation
Indices: 49618681--49618963 Score: 417
Period size: 126 Copynumber: 2.3 Consensus size: 125
49618671 TTATTTCGAG
** *
49618681 TTGACGTTTCTG-GTCAAATAGTATAAAATCGCTTCTATCAGGATGCTATCAGAGAAGAAATTGT
1 TTGACGTTTCTGAG-CAAATAGTATAAAATCGCTGATACCAGGATGCTATCAGAGAAGAAATTGT
* * *
49618745 GAAATCGTGCCCTCGTGGACGCGATTTCGGTACAGTTGGTCATGTAAGAAATAATTTTTTT
65 GAAATCGCGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTATTTT
*
49618806 TTGACGTTTTCTGAGCAAATAGTATAAAATCGCTGATGCCAGGATGCTAT-ATGAGAAGAAATTG
1 TTGACG-TTTCTGAGCAAATAGTATAAAATCGCTGATACCAGGATGCTATCA-GAGAAGAAATTG
* *
49618870 TGAAATCGCGCCCTCGTGGACGCGATTTCGCTATAGTTGGTCATGTAGGAAATAATTATTTT
64 TGAAATCGCGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTATTTT
* * *
49618932 TTGACGTTTCTGAGCAAACAGTGTCAAATCGC
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGC
49618964 GCCCTCGTGG
Statistics
Matches: 143, Mismatches: 12, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
125 30 0.21
126 112 0.78
127 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (125 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCTGATACCAGGATGCTATCAGAGAAGAAATTGTG
AAATCGCGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTATTTT
Found at i:49622178 original size:30 final size:29
Alignment explanation
Indices: 49622120--49622178 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
49622110 TTCGCGAAAT
* **
49622120 TGGCCCATTCCGGTAAATAATTAAAAAAG
1 TGGCCCATTCCAGTAAATAAAAAAAAAAG
*
49622149 TGGCCCATTTCAGTAAATTAAAAAAAAAAG
1 TGGCCCATTCCAGTAAA-TAAAAAAAAAAG
49622179 GCTTTTTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 15 0.60
30 10 0.40
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.24
Consensus pattern (29 bp):
TGGCCCATTCCAGTAAATAAAAAAAAAAG
Found at i:49623011 original size:14 final size:13
Alignment explanation
Indices: 49622987--49623017 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
49622977 GTAATTTTAA
49622987 AAATAGATTTTTT
1 AAATAGATTTTTT
49623000 AAATAGATTTTTT
1 AAATAGATTTTTT
*
49623013 TAATA
1 AAATA
49623018 AAATTCTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (13 bp):
AAATAGATTTTTT
Found at i:49632575 original size:28 final size:28
Alignment explanation
Indices: 49632542--49632599 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
49632532 TACATGAACT
*
49632542 CTAGCTTGGCAAACATATACCTGCAAGC
1 CTAGCTTGGCAAACATATACCTACAAGC
*
49632570 CTAGCTTGGCGAACATATACCTACAAGC
1 CTAGCTTGGCAAACATATACCTACAAGC
49632598 CT
1 CT
49632600 TACTTAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.22
Consensus pattern (28 bp):
CTAGCTTGGCAAACATATACCTACAAGC
Found at i:49634265 original size:20 final size:18
Alignment explanation
Indices: 49634217--49634266 Score: 50
Period size: 20 Copynumber: 2.7 Consensus size: 18
49634207 TTTATCTTGT
49634217 TATTAAATTAA-ATTTAA
1 TATTAAATTAATATTTAA
*
49634234 TGTTAAGA-TAATCACTTTAA
1 TATTAA-ATTAAT-A-TTTAA
49634254 TATTAAATTAATA
1 TATTAAATTAATA
49634267 AAATACTACC
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
17 8 0.31
18 1 0.04
19 3 0.12
20 14 0.54
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (18 bp):
TATTAAATTAATATTTAA
Found at i:49636241 original size:255 final size:255
Alignment explanation
Indices: 49635790--49636299 Score: 1002
Period size: 255 Copynumber: 2.0 Consensus size: 255
49635780 TATGGACTCG
* *
49635790 TTTAGATTATCTACTAAAGTAAGTGTCTTTCTCACAATGTAAATGTTTTTACAGTGTCGCTTATC
1 TTTAGATTATCTACTAAAGTAAGTGTCTTTCTCACAATGTAAATATTTTTACAGTGTCACTTATC
49635855 ATCAGTTTGAACTTAGACAATTAATAAGCTAATATTTGCTTGTCACAATTTCGCTATGCATGCAA
66 ATCAGTTTGAACTTAGACAATTAATAAGCTAATATTTGCTTGTCACAATTTCGCTATGCATGCAA
49635920 AACATGAAAGACATAAAAACAAAAGATATAATAGTAAAATGTGAAATTAATCTTATTTATTCATT
131 AACATGAAAGACATAAAAACAAAAGATATAATAGTAAAATGTGAAATTAATCTTATTTATTCATT
49635985 CATTGTTCAAATACATAGAAAATAATTACATGTTTATTACAATATGGACACATTTCTCAA
196 CATTGTTCAAATACATAGAAAATAATTACATGTTTATTACAATATGGACACATTTCTCAA
49636045 TTTAGATTATCTACTAAAGTAAGTGTCTTTCTCACAATGTAAATATTTTTACAGTGTCACTTATC
1 TTTAGATTATCTACTAAAGTAAGTGTCTTTCTCACAATGTAAATATTTTTACAGTGTCACTTATC
49636110 ATCAGTTTGAACTTAGACAATTAATAAGCTAATATTTGCTTGTCACAATTTCGCTATGCATGCAA
66 ATCAGTTTGAACTTAGACAATTAATAAGCTAATATTTGCTTGTCACAATTTCGCTATGCATGCAA
49636175 AACATGAAAGACATAAAAACAAAAGATATAATAGTAAAATGTGAAATTAATCTTATTTATTCATT
131 AACATGAAAGACATAAAAACAAAAGATATAATAGTAAAATGTGAAATTAATCTTATTTATTCATT
49636240 CATTGTTCAAATACATAGAAAATAATTACATGTTTATTACAATATGGACACATTTCTCAA
196 CATTGTTCAAATACATAGAAAATAATTACATGTTTATTACAATATGGACACATTTCTCAA
49636300 CAAAACAACC
Statistics
Matches: 253, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
255 253 1.00
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.36
Consensus pattern (255 bp):
TTTAGATTATCTACTAAAGTAAGTGTCTTTCTCACAATGTAAATATTTTTACAGTGTCACTTATC
ATCAGTTTGAACTTAGACAATTAATAAGCTAATATTTGCTTGTCACAATTTCGCTATGCATGCAA
AACATGAAAGACATAAAAACAAAAGATATAATAGTAAAATGTGAAATTAATCTTATTTATTCATT
CATTGTTCAAATACATAGAAAATAATTACATGTTTATTACAATATGGACACATTTCTCAA
Done.