Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold250
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: 185408
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
File 1 of 2
Found at i:107 original size:13 final size:13
Alignment explanation
Indices: 91--116 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
81 ATTTAATTTA
91 TTTAATTTAAAAT
1 TTTAATTTAAAAT
104 TTTAATTTAAAAT
1 TTTAATTTAAAAT
117 GTAATCATCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TTTAATTTAAAAT
Found at i:168 original size:31 final size:31
Alignment explanation
Indices: 131--193 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
121 TCATCTAATT
131 ATTAAGAGTTATAATCATCTAATTATTTTAA
1 ATTAAGAGTTATAATCATCTAATTATTTTAA
*
162 ATTAAGAGTTATAATCCTCTAATTATTTTAA
1 ATTAAGAGTTATAATCATCTAATTATTTTAA
193 A
1 A
194 ATTTTTATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.44
Consensus pattern (31 bp):
ATTAAGAGTTATAATCATCTAATTATTTTAA
Found at i:655 original size:22 final size:22
Alignment explanation
Indices: 607--648 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
597 AAGGAATCGT
* * *
607 TAAAGTATTTAATAATTTTAAC
1 TAAAATATTTAACAATTTCAAC
629 TAAAATATTTAACAATTTCA
1 TAAAATATTTAACAATTTCA
649 CATAAAACTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (22 bp):
TAAAATATTTAACAATTTCAAC
Found at i:1870 original size:28 final size:28
Alignment explanation
Indices: 1810--1870 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
1800 TTCTTGTAAA
1810 TTAAATTAATAATATTTCAATAATTAAT
1 TTAAATTAATAATATTTCAATAATTAAT
* * *
1838 ATAAATTAATATTA-TTCTAATAATTTAT
1 TTAAATTAATAATATTTC-AATAATTAAT
1866 TTAAA
1 TTAAA
1871 AATAAAAAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 3 0.11
28 25 0.89
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (28 bp):
TTAAATTAATAATATTTCAATAATTAAT
Found at i:4058 original size:233 final size:232
Alignment explanation
Indices: 3651--4118 Score: 774
Period size: 233 Copynumber: 2.0 Consensus size: 232
3641 CAAATAATAC
*
3651 AAATCATGACAGTAATATTCGAATCTAAATATTTCTTTCCATATATTACAATAAACAATTATCTC
1 AAATCATGACAGTAACATTCGAATCTAAATATTTCTTTCCATATATTACAATAAACAATTATCTC
* *
3716 TAAAAGAGTACTTCATGATATAATACTTTACAAATAAATTTATACTACAAAATTCAAAGGAATTG
66 TAAAAGAGTACTTCATGAGATAATACTTTACAAATAAATTTACACTACAAAATTCAAAGGAATTG
* * *
3781 AAGACGATTAATAACTGTCTCTAGAAGATGAAAAATCATCCTTTAAAATTTTAGAGATGAAATAT
131 AAGACGATTAATAACTGTCTCTAGAACATGAAAAATCATCCTTTAAAATTTTAGAAATAAAATAT
*
3846 TATCCCTAACAATCATCTTATAAAACCATATCTCTATA
196 TATCCCTAACAATCATCCTATAAAACCATATCTCTA-A
* * *
3884 AAATCATGACAGTAACATTCGAATCTAAATATTTCTTTCCATATATTACAATGAATAGTTATCTC
1 AAATCATGACAGTAACATTCGAATCTAAATATTTCTTTCCATATATTACAATAAACAATTATCTC
* * * *
3949 TAAAAGAGTATTTTATGAGATAATACTTTATAAATGAATTTACACTACAAAATTCAAAGGAATTG
66 TAAAAGAGTACTTCATGAGATAATACTTTACAAATAAATTTACACTACAAAATTCAAAGGAATTG
*
4014 AGGACGATTAATAACTGTCTCTAGAACATGAAAAATCATCCTTTAAAATTTTAGAAATAAAATAT
131 AAGACGATTAATAACTGTCTCTAGAACATGAAAAATCATCCTTTAAAATTTTAGAAATAAAATAT
* *
4079 TATCCCTAACAATCATCCTATAAAATCATGTCTCTAA
196 TATCCCTAACAATCATCCTATAAAACCATATCTCTAA
4116 AAA
1 AAA
4119 GTTTTGAAGA
Statistics
Matches: 218, Mismatches: 17, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
232 4 0.02
233 214 0.98
ACGTcount: A:0.44, C:0.15, G:0.08, T:0.33
Consensus pattern (232 bp):
AAATCATGACAGTAACATTCGAATCTAAATATTTCTTTCCATATATTACAATAAACAATTATCTC
TAAAAGAGTACTTCATGAGATAATACTTTACAAATAAATTTACACTACAAAATTCAAAGGAATTG
AAGACGATTAATAACTGTCTCTAGAACATGAAAAATCATCCTTTAAAATTTTAGAAATAAAATAT
TATCCCTAACAATCATCCTATAAAACCATATCTCTAA
Found at i:7534 original size:80 final size:80
Alignment explanation
Indices: 7448--7602 Score: 179
Period size: 80 Copynumber: 1.9 Consensus size: 80
7438 CGTTCCCCGA
* *
7448 TGAAAAATTTAATA-TTTT-GGAGCTAAAAACGGAGTTGGAGAATTCCCTCGAAAATAATAGGGT
1 TGAAAAA-TTAATATTTTTGGGA-ATAAAAACGGAGTTGGAGAATCCCCTCGAAAATAATAGGGT
7511 TAGAGTATCCCCGATGG
64 TAGAGTATCCCCGATGG
* * * * * * * * *
7528 TGAAAAATTGATATTTTTGGGAATAAAAATGGGGTTGGAGTATCCCCTCGGAATTGATGGGGTTG
1 TGAAAAATTAATATTTTTGGGAATAAAAACGGAGTTGGAGAATCCCCTCGAAAATAATAGGGTTA
7593 GAGTATCCCC
66 GAGTATCCCC
7603 TCGAAAATAG
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
79 5 0.08
80 54 0.87
81 3 0.05
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.29
Consensus pattern (80 bp):
TGAAAAATTAATATTTTTGGGAATAAAAACGGAGTTGGAGAATCCCCTCGAAAATAATAGGGTTA
GAGTATCCCCGATGG
Found at i:7589 original size:28 final size:27
Alignment explanation
Indices: 7552--7630 Score: 106
Period size: 28 Copynumber: 2.9 Consensus size: 27
7542 TTTTGGGAAT
7552 AAAA-ATGGGGTTGGAGTATCCCCTCG
1 AAAATATGGGGTTGGAGTATCCCCTCG
* *
7578 GAATTGATGGGGTTGGAGTATCCCCTCG
1 AAAAT-ATGGGGTTGGAGTATCCCCTCG
*
7606 AAAATAGGGAGGTTGGAGTATCCCC
1 AAAATATGG-GGTTGGAGTATCCCC
7631 GATGGTGAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
26 2 0.04
27 3 0.07
28 40 0.89
ACGTcount: A:0.25, C:0.18, G:0.33, T:0.24
Consensus pattern (27 bp):
AAAATATGGGGTTGGAGTATCCCCTCG
Found at i:7607 original size:108 final size:110
Alignment explanation
Indices: 7481--7709 Score: 304
Period size: 108 Copynumber: 2.1 Consensus size: 110
7471 TAAAAACGGA
* * * *
7481 GTTGGAGAATTCCCTCGAAAATA-ATAGGGTTAGAGTATCCCCGATGGTGAAAAATTGATATTTT
1 GTTGGAGTATCCCCTCGAAAATAGAGA-GGTTAGAGTATCCCCGATGGTGAAAAATCGATA-TTT
* * * * *
7545 TGGGAAT-A-AAAATG-GGGTTGGAGTATCCCCTCGGAATTGATGGG
64 TAGAAATAACAAAAAGAGGGTTGGAGTATCCCCTCGGAAATAATGGG
* *
7589 GTTGGAGTATCCCCTCGAAAATAGGGAGGTTGGAGTATCCCCGATGGTGAAAAATCGATATTTTA
1 GTTGGAGTATCCCCTCGAAAATAGAGAGGTTAGAGTATCCCCGATGGTGAAAAATCGATATTTTA
7654 GAAATAACAAAAAGAGGGTTGGAGTATCCCCTCGGAAATAATGGG
66 GAAATAACAAAAAGAGGGTTGGAGTATCCCCTCGGAAATAATGGG
*
7699 GTTAGAGTATC
1 GTTGGAGTATC
7710 TCTGATGGTG
Statistics
Matches: 105, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
107 8 0.08
108 53 0.50
109 6 0.06
110 38 0.36
ACGTcount: A:0.32, C:0.13, G:0.28, T:0.27
Consensus pattern (110 bp):
GTTGGAGTATCCCCTCGAAAATAGAGAGGTTAGAGTATCCCCGATGGTGAAAAATCGATATTTTA
GAAATAACAAAAAGAGGGTTGGAGTATCCCCTCGGAAATAATGGG
Found at i:7724 original size:82 final size:83
Alignment explanation
Indices: 7587--7739 Score: 229
Period size: 82 Copynumber: 1.9 Consensus size: 83
7577 GGAATTGATG
*
7587 GGGTTGGAGTATCCCCTCGAAAATAGGGAGGTTGGAGTATCCCCGATGGTGAAAAATCGATATTT
1 GGGTTGGAGTATCCCCTCGAAAATAGGGAGGTTAGAGTATCCCCGATGGTGAAAAATCGATATTT
7652 T-AGAAATAACAAAAAGA
66 TGAGAAATAACAAAAAGA
* * * * *
7669 GGGTTGGAGTATCCCCTCGGAAATAATGG-GGTTAGAGTATCTCTGATGGTGAAAAATTGATATT
1 GGGTTGGAGTATCCCCTCGAAAAT-AGGGAGGTTAGAGTATCCCCGATGGTGAAAAATCGATATT
7733 TTGAGAA
65 TTGAGAA
7740 TAAAAATGAT
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
82 56 0.89
83 7 0.11
ACGTcount: A:0.33, C:0.12, G:0.28, T:0.27
Consensus pattern (83 bp):
GGGTTGGAGTATCCCCTCGAAAATAGGGAGGTTAGAGTATCCCCGATGGTGAAAAATCGATATTT
TGAGAAATAACAAAAAGA
Found at i:7799 original size:82 final size:77
Alignment explanation
Indices: 7588--8033 Score: 285
Period size: 81 Copynumber: 5.5 Consensus size: 77
7578 GAATTGATGG
* * *
7588 GGTTGGAGTATCCCCTCGAAAATAG-GGAGGTTGGAGTATCCCCGATGGTGAAAAATCGATATTT
1 GGTTGGAGTATCCCCTCGGAAATAGTGG-GGTTGGAGTATCCCAGAT-G-GAAAAATTGATATTT
* *
7652 TAGAAATAACAAAAAGA
63 TAGAAGT-A-AAAATGA
* * * *
7669 GGGTTGGAGTATCCCCTCGGAAATAATGGGGTTAGAGTATCTCTGATGGTGAAAAATTGATATTT
1 -GGTTGGAGTATCCCCTCGGAAATAGTGGGGTTGGAGTATCCCAGAT-G-GAAAAATTGATATTT
7734 TGAGAA-TAAAAATGA
63 T-AGAAGTAAAAATGA
** * * * **
7749 TATTTGAGTATCTCCTTGGAAATAGTGGGGTTGGAGTATTCCCGAAGATGGAAATTTTGAT-TTT
1 GGTTGGAGTATCCCCTCGGAAATAGTGGGGTTGGAGTA-TCCC--AGATGGAAAAATTGATATTT
* *
7813 TAAGAAGTCAAAATGG
63 T-AGAAGTAAAAATGA
** *
7829 GGTTGGAGTATCCCCTCGGAAGACGGTGGGGTTGGAGTTTCCCCGAAGATGG-AAAATTGGATAT
1 GGTTGGAGTATCCCCTCGGAA-ATAGTGGGGTTGGAGTAT-CCC--AGATGGAAAAATT-GATA-
* *
7893 TTTTAAAAGTAAAAATGG
60 TTTTAGAAGTAAAAATGA
* * ** ** * *
7911 GGTTGGCA-TATCTCGTAAGAAATAGTGAAGTTGGAGTATCCCCGAAAATGG-AAAGTTGGATAT
1 GGTTGG-AGTATCCCCTCGGAAATAGTGGGGTTGGAGTAT-CCC--AGATGGAAAAATT-GATA-
*
7974 TTTTAGATGTAAAAAT-A
60 TTTTAGAAGTAAAAATGA
** * *
7991 GGGTTGGAGTATCCCCTAAGAAATGGTGGGGTTAGAGTATCCC
1 -GGTTGGAGTATCCCCTCGGAAATAGTGGGGTTGGAGTATCCC
8034 CAAAAATGAA
Statistics
Matches: 297, Mismatches: 53, Indels: 30
0.78 0.14 0.08
Matches are distributed among these distances:
79 39 0.13
80 50 0.17
81 110 0.37
82 87 0.29
83 11 0.04
ACGTcount: A:0.32, C:0.11, G:0.28, T:0.29
Consensus pattern (77 bp):
GGTTGGAGTATCCCCTCGGAAATAGTGGGGTTGGAGTATCCCAGATGGAAAAATTGATATTTTAG
AAGTAAAAATGA
Found at i:7879 original size:81 final size:80
Alignment explanation
Indices: 7767--8055 Score: 303
Period size: 81 Copynumber: 3.6 Consensus size: 80
7757 TATCTCCTTG
* * * * *
7767 GAAATAGTGGGGTTGGAGTATTCCCGAAGATGGAAATTTTGATTTTTAAGAAGTCAAAATGGGGT
1 GAAATGGTGGGGTTGGAGTATCCCCGAAAATGGAAATTTGGATTTTTAAGAAGTAAAAATGGGGT
**
7832 TGGAGTATCCCCTCG
66 TGGAGTATCCCCTAA
* * * *
7847 GAAGACGGTGGGGTTGGAGTTTCCCCGAAGATGGAAAATTGGATATTTTTAA-AAGTAAAAATGG
1 GAA-ATGGTGGGGTTGGAGTATCCCCGAAAATGGAAATTTGG--ATTTTTAAGAAGTAAAAATGG
* *
7911 GGTTGGCA-TATCTCGTAA
63 GGTTGG-AGTATCCCCTAA
* ** * * * *
7929 GAAATAGTGAAGTTGGAGTATCCCCGAAAATGGAAAGTTGGATATTTTTAGATGTAAAAATAGGG
1 GAAATGGTGGGGTTGGAGTATCCCCGAAAATGGAAATTTGGAT-TTTTAAGAAGTAAAAATGGGG
7994 TTGGAGTATCCCCTAA
65 TTGGAGTATCCCCTAA
* * * *
8010 GAAATGGTGGGGTTAGAGTATCCCCAAAAATGAAAATTTTGATTTT
1 GAAATGGTGGGGTTGGAGTATCCCCGAAAATGGAAATTTGGATTTT
8056 GTAGAGATAA
Statistics
Matches: 171, Mismatches: 31, Indels: 14
0.79 0.14 0.06
Matches are distributed among these distances:
79 2 0.01
80 12 0.07
81 122 0.71
82 26 0.15
83 9 0.05
ACGTcount: A:0.33, C:0.10, G:0.28, T:0.29
Consensus pattern (80 bp):
GAAATGGTGGGGTTGGAGTATCCCCGAAAATGGAAATTTGGATTTTTAAGAAGTAAAAATGGGGT
TGGAGTATCCCCTAA
Found at i:9414 original size:2 final size:2
Alignment explanation
Indices: 9409--9445 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
9399 AAACATGTAC
9409 AT AT AT AT AT 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 AT AT AT AT AT A
9446 ACACTACACC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10316 original size:18 final size:20
Alignment explanation
Indices: 10295--10333 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
10285 TTTTTGTGTC
10295 TTTCA-TTGCTTTT-TCATT
1 TTTCATTTGCTTTTGTCATT
*
10313 TTTCATTTGTTTTTGTCATT
1 TTTCATTTGCTTTTGTCATT
10333 T
1 T
10334 CATGACCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 7 0.39
20 6 0.33
ACGTcount: A:0.10, C:0.13, G:0.08, T:0.69
Consensus pattern (20 bp):
TTTCATTTGCTTTTGTCATT
Found at i:13980 original size:32 final size:32
Alignment explanation
Indices: 13939--14107 Score: 329
Period size: 32 Copynumber: 5.3 Consensus size: 32
13929 AGCTTCGTAG
*
13939 CGATACATTGTATCGATACAAAACCTATGTAT
1 CGATACATTGTATCGATACAACACCTATGTAT
13971 CGATACATTGTATCGATACAACACCTATGTAT
1 CGATACATTGTATCGATACAACACCTATGTAT
14003 CGATACATTGTATCGATACAACACCTATGTAT
1 CGATACATTGTATCGATACAACACCTATGTAT
14035 CGATACATTGTATCGATACAACACCTATGTAT
1 CGATACATTGTATCGATACAACACCTATGTAT
14067 CGATACATTGTATCGATACAACACCTATGTAT
1 CGATACATTGTATCGATACAACACCTATGTAT
14099 CGATACATT
1 CGATACATT
14108 TACTATTTGT
Statistics
Matches: 136, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
32 136 1.00
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.31
Consensus pattern (32 bp):
CGATACATTGTATCGATACAACACCTATGTAT
Found at i:13984 original size:13 final size:13
Alignment explanation
Indices: 13966--14086 Score: 80
Period size: 13 Copynumber: 7.9 Consensus size: 13
13956 ACAAAACCTA
13966 TGTATCGATACAT
1 TGTATCGATACAT
13979 TGTATCGATACAACACCT
1 TGTATCGAT---ACA--T
13997 ATGTATCGATACAT
1 -TGTATCGATACAT
14011 TGTATCGATACAACACCT
1 TGTATCGAT---ACA--T
14029 ATGTATCGATACAT
1 -TGTATCGATACAT
14043 TGTATCGATACAACACCT
1 TGTATCGAT---ACA--T
14061 ATGTATCGATACAT
1 -TGTATCGATACAT
14075 TGTATCGATACA
1 TGTATCGATACA
14087 ACACCTATGT
Statistics
Matches: 90, Mismatches: 0, Indels: 36
0.71 0.00 0.29
Matches are distributed among these distances:
13 39 0.43
14 3 0.03
16 18 0.20
18 3 0.03
19 27 0.30
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:15019 original size:49 final size:49
Alignment explanation
Indices: 14952--15061 Score: 150
Period size: 49 Copynumber: 2.2 Consensus size: 49
14942 TTAAAGATGC
*
14952 CAATATGCTGATTCAAGGCCAACGATATCAGACTTAAAGATGA-AGGTGA
1 CAATATGCTGATTCAAGGCCAACGACATCAGACTTAAAGATGACA-GTGA
* ** * *
15001 CAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGACAGTGC
1 CAATATGCTGATTCAAGGCCAACGACATCAGACTTAAAGATGACAGTGA
15050 CAATATGCTGAT
1 CAATATGCTGAT
15062 GAAGGTGCCA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
49 52 0.98
50 1 0.02
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.25
Consensus pattern (49 bp):
CAATATGCTGATTCAAGGCCAACGACATCAGACTTAAAGATGACAGTGA
Found at i:15101 original size:69 final size:72
Alignment explanation
Indices: 14990--15134 Score: 206
Period size: 69 Copynumber: 2.0 Consensus size: 72
14980 CAGACTTAAA
* *
14990 GATGAAGGTGACAATGTGCTGATTCAAGGCCAACGACATTGGTCTT-AAAGATGA-CA-GTGCCA
1 GATGAAGGTGACAATATGCTGATTCAAGGCCAACGACATTGGTCTTAAAAGATGAGAAGGTGCCA
15052 ATATGCT
66 ATATGCT
* * * *
15059 GATGAAGGTGCCAATATGTTGATTCAAGGTCAGCGACATTGGTCTTAAAAGATGAGAAGGGTGCC
1 GATGAAGGTGACAATATGCTGATTCAAGGCCAACGACATTGGTCTTAAAAGATGAGAA-GGTGCC
15124 AATATGCT
65 AATATGCT
15132 GAT
1 GAT
15135 TCAAGGCCAG
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
69 41 0.62
70 8 0.12
71 1 0.02
73 16 0.24
ACGTcount: A:0.32, C:0.15, G:0.28, T:0.26
Consensus pattern (72 bp):
GATGAAGGTGACAATATGCTGATTCAAGGCCAACGACATTGGTCTTAAAAGATGAGAAGGTGCCA
ATATGCT
Found at i:15282 original size:49 final size:49
Alignment explanation
Indices: 15063--15355 Score: 355
Period size: 49 Copynumber: 6.0 Consensus size: 49
15053 TATGCTGATG
* * * *
15063 AAGGTGCCAATATGTTGATTCAAGGTCAGCGACATTGGTCTTAAAAGATGA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AAAGAT-A
* * *
15114 GAAGGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTCAATAGGGTA
1 -AA-GGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAA-A-GATA
15167 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----TA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATA
* ** * *
15210 AAGGTGCCAATGTGCTGATTCAAGGCCAATGACATTGGTCTTAAAGATA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATA
* *
15259 AAGGTGCCAATATGCTAACTCAAGGCCAGCGATATTGGACTTAAAGATA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATA
15308 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAGAAGA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA-AAGA
15356 AAATGCCACC
Statistics
Matches: 208, Mismatches: 23, Indels: 22
0.82 0.09 0.09
Matches are distributed among these distances:
43 37 0.18
44 1 0.00
49 85 0.41
50 4 0.02
51 37 0.18
52 6 0.03
53 36 0.17
54 2 0.01
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.25
Consensus pattern (49 bp):
AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATA
Found at i:15289 original size:92 final size:94
Alignment explanation
Indices: 15118--15335 Score: 278
Period size: 92 Copynumber: 2.3 Consensus size: 94
15108 AGATGAGAAG
* * *
15118 GGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTCAATAGGGTAAAGGTGCCAATATGCT
1 GGTGCCAATATGCTGATTCAAGGCCAACAACATTGGACTCAATAGGATAAAGGTGCCAATATGCT
* *
15183 GATTCAAGGCCAGCGATATTGGACTTAAA
66 AACTCAAGGCCAGCGATATTGGACTTAAA
* ** * *
15212 GGTGCCAATGTGCTGATTCAAGGCCAATGACATTGGTCTTAA-A-GATAAAGGTGCCAATATGCT
1 GGTGCCAATATGCTGATTCAAGGCCAACAACATTGGACTCAATAGGATAAAGGTGCCAATATGCT
15275 AACTCAAGGCCAGCGATATTGGACTTAAAGATAAA
66 AACTCAAGGCCAGCGATATTGGAC-T-----TAAA
15310 GGTGCCAATATGCTGATTCAAGGCCA
1 GGTGCCAATATGCTGATTCAAGGCCA
15336 GCGATATTGG
Statistics
Matches: 107, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
92 41 0.38
93 2 0.02
94 35 0.33
98 29 0.27
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (94 bp):
GGTGCCAATATGCTGATTCAAGGCCAACAACATTGGACTCAATAGGATAAAGGTGCCAATATGCT
AACTCAAGGCCAGCGATATTGGACTTAAA
Found at i:15341 original size:141 final size:147
Alignment explanation
Indices: 15063--15350 Score: 444
Period size: 141 Copynumber: 2.0 Consensus size: 147
15053 TATGCTGATG
* * *
15063 AAGGTGCCAATATGTTGATTCAAGGTCAGCGACATTGGTCTTAAAAGATGAGAAGGGTGCCAATA
1 AAGGTGCCAATATGCTGATTCAAGGCCAACGACATTGGTCTTAAAAGATGAGAAGGGTGCCAATA
* * *
15128 TGCTGATTCAAGGCCAGCAATATTGGACTCAATAGGGTAAAGGTGCCAATATGCTGATTCAAGGC
66 TGCTAACTCAAGGCCAGCAATATTGGACTCAATAGGATAAAGGTGCCAATATGCTGATTCAAGGC
15193 CAGCGATATTGGACTTA
131 CAGCGATATTGGACTTA
* *
15210 AAGGTGCCAATGTGCTGATTCAAGGCCAATGACATTGGTCTT-AAAGAT-A-AA-GGTGCCAATA
1 AAGGTGCCAATATGCTGATTCAAGGCCAACGACATTGGTCTTAAAAGATGAGAAGGGTGCCAATA
* *
15271 TGCTAACTCAAGGCCAGCGATATTGGACTTAA-A-GATAAAGGTGCCAATATGCTGATTCAAGGC
66 TGCTAACTCAAGGCCAGCAATATTGGACTCAATAGGATAAAGGTGCCAATATGCTGATTCAAGGC
15334 CAGCGATATTGGACTTA
131 CAGCGATATTGGACTTA
15351 GAAGAAAATG
Statistics
Matches: 131, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
141 46 0.35
142 1 0.01
143 38 0.29
144 2 0.02
145 1 0.01
146 6 0.05
147 37 0.28
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (147 bp):
AAGGTGCCAATATGCTGATTCAAGGCCAACGACATTGGTCTTAAAAGATGAGAAGGGTGCCAATA
TGCTAACTCAAGGCCAGCAATATTGGACTCAATAGGATAAAGGTGCCAATATGCTGATTCAAGGC
CAGCGATATTGGACTTA
Found at i:15409 original size:29 final size:29
Alignment explanation
Indices: 15372--15703 Score: 433
Period size: 29 Copynumber: 11.5 Consensus size: 29
15362 CACCAACTTG
**
15372 TGTGGGCTTTTGAAAGGGTTG-CACCAACT
1 TGTGGGCTTTTGAAA-GGTTGCCACTGACT
*
15401 TGTGTGCTTTTG-AAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAGGTTGCCACTGACT
* * *
15429 TGTGGGCTTTTGAAAAGATGCCACGGACT
1 TGTGGGCTTTTGAAAGGTTGCCACTGACT
15458 TGTGGGCTTTTG-AAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAGGTTGCCACTGACT
* *
15486 TGTGGGCTTTGGAAAGGATGCCACTGACT
1 TGTGGGCTTTTGAAAGGTTGCCACTGACT
* *
15515 TGTGGGCTTTGGAAAAGGGTGCCACTGACT
1 TGTGGGCTTTTG-AAAGGTTGCCACTGACT
15545 TGTGGGCTTTTG-AAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAGGTTGCCACTGACT
*
15573 TGTGGG-TTTTGGAAAGGATGCCACTGACT
1 TGTGGGCTTTT-GAAAGGTTGCCACTGACT
* *
15602 TGTGGGCTTTGGAAAAGGGTGCCACTGACT
1 TGTGGGCTTTTG-AAAGGTTGCCACTGACT
*
15632 TGTGGGCTTTTG-AAGGTTGCCACTAACT
1 TGTGGGCTTTTGAAAGGTTGCCACTGACT
* *
15660 TGTGGGCTTTGGAAAGGATGCCACTGACT
1 TGTGGGCTTTTGAAAGGTTGCCACTGACT
*
15689 TGTGGGCTTTGGAAA
1 TGTGGGCTTTTGAAA
15704 AGGTGAGGAA
Statistics
Matches: 270, Mismatches: 24, Indels: 18
0.87 0.08 0.06
Matches are distributed among these distances:
27 9 0.03
28 90 0.33
29 114 0.42
30 57 0.21
ACGTcount: A:0.19, C:0.17, G:0.33, T:0.31
Consensus pattern (29 bp):
TGTGGGCTTTTGAAAGGTTGCCACTGACT
Found at i:15459 original size:57 final size:57
Alignment explanation
Indices: 15372--15698 Score: 444
Period size: 57 Copynumber: 5.7 Consensus size: 57
15362 CACCAACTTG
* * ** *
15372 TGTGGGCTTTTGAAAGGGTTG-CACCAACTTGTGTGCTTTTGAAGGTTGCCACTGACT
1 TGTGGGCTTTGGAAA-GGATGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTGACT
* * *
15429 TGTGGGCTTTTGAAAAGATGCCACGGACTTGTGGGCTTTTGAAGGTTGCCACTGACT
1 TGTGGGCTTTGGAAAGGATGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTGACT
* *
15486 TGTGGGCTTTGGAAAGGATGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACT
1 TGTGGGCTTTGGAAAGGATGCCACTGACTTGTGGGCTTTTG--AAGGTTGCCACTGACT
* * *
15545 TGTGGGCTTTTG-AAGGTTGCCACTGACTTGTGGG-TTTTGGAAAGGATGCCACTGACT
1 TGTGGGCTTTGGAAAGGATGCCACTGACTTGTGGGCTTTT-G-AAGGTTGCCACTGACT
* *
15602 TGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTAACT
1 TGTGGGCTTTGG-AAAGGATGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTGACT
15660 TGTGGGCTTTGGAAAGGATGCCACTGACTTGTGGGCTTT
1 TGTGGGCTTTGGAAAGGATGCCACTGACTTGTGGGCTTT
15699 GGAAAAGGTG
Statistics
Matches: 244, Mismatches: 19, Indels: 14
0.88 0.07 0.05
Matches are distributed among these distances:
56 3 0.01
57 141 0.58
58 48 0.20
59 48 0.20
60 4 0.02
ACGTcount: A:0.18, C:0.17, G:0.33, T:0.32
Consensus pattern (57 bp):
TGTGGGCTTTGGAAAGGATGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTGACT
Found at i:15561 original size:87 final size:87
Alignment explanation
Indices: 15372--15706 Score: 541
Period size: 87 Copynumber: 3.9 Consensus size: 87
15362 CACCAACTTG
* * * *
15372 TGTGGGCTTTTGAAAGGGTTG-CACCAACTTGTGTGCTTTTG-AAGGTTGCCACTGACTTGTGGG
1 TGTGGGCTTTTG-AA-GGTTGCCACTAACTTGTGGGCTTTGGAAAGGATGCCACTGACTTGTGGG
* * *
15435 CTTTTGAAAA-GATGCCACGGACT
64 CTTTGGAAAAGGGTGCCACTGACT
*
15458 TGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGGAAAGGATGCCACTGACTTGTGGGCT
1 TGTGGGCTTTTGAAGGTTGCCACTAACTTGTGGGCTTTGGAAAGGATGCCACTGACTTGTGGGCT
15523 TTGGAAAAGGGTGCCACTGACT
66 TTGGAAAAGGGTGCCACTGACT
* *
15545 TGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGTTTTGGAAAGGATGCCACTGACTTGTGGGCT
1 TGTGGGCTTTTGAAGGTTGCCACTAACTTGTGGGCTTTGGAAAGGATGCCACTGACTTGTGGGCT
15610 TTGGAAAAGGGTGCCACTGACT
66 TTGGAAAAGGGTGCCACTGACT
15632 TGTGGGCTTTTGAAGGTTGCCACTAACTTGTGGGCTTTGGAAAGGATGCCACTGACTTGTGGGCT
1 TGTGGGCTTTTGAAGGTTGCCACTAACTTGTGGGCTTTGGAAAGGATGCCACTGACTTGTGGGCT
15697 TTGGAAAAGG
66 TTGGAAAAGG
15707 TGAGGAATGT
Statistics
Matches: 235, Mismatches: 11, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
84 5 0.02
85 18 0.08
86 42 0.18
87 170 0.72
ACGTcount: A:0.19, C:0.16, G:0.33, T:0.31
Consensus pattern (87 bp):
TGTGGGCTTTTGAAGGTTGCCACTAACTTGTGGGCTTTGGAAAGGATGCCACTGACTTGTGGGCT
TTGGAAAAGGGTGCCACTGACT
Found at i:17162 original size:12 final size:12
Alignment explanation
Indices: 17147--17177 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
17137 CGTTGTTTTT
17147 TTTGTTTTGTTG
1 TTTGTTTTGTTG
17159 TTTGTTTTGTTG
1 TTTGTTTTGTTG
17171 TTT-TTTT
1 TTTGTTTT
17178 ATTTTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.21
12 15 0.79
ACGTcount: A:0.00, C:0.00, G:0.19, T:0.81
Consensus pattern (12 bp):
TTTGTTTTGTTG
Found at i:24036 original size:11 final size:11
Alignment explanation
Indices: 24020--24050 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
24010 GTTTGCAAAA
24020 TAAAAAAAATT
1 TAAAAAAAATT
*
24031 TAAAAAAATTT
1 TAAAAAAAATT
24042 TAAAAAAAA
1 TAAAAAAAA
24051 ATACATTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (11 bp):
TAAAAAAAATT
Found at i:24261 original size:13 final size:13
Alignment explanation
Indices: 24243--24268 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24233 ATTAAGGAAA
24243 TGTATCGATACAT
1 TGTATCGATACAT
24256 TGTATCGATACAT
1 TGTATCGATACAT
24269 CGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:26134 original size:52 final size:53
Alignment explanation
Indices: 26070--26200 Score: 142
Period size: 52 Copynumber: 2.5 Consensus size: 53
26060 AGTTTCTCAA
*
26070 TTTCTCATAATCGGGGATACTCCAACCCCAG-TTTTATTTTC-AAAACACCAAT
1 TTTC-CATAATCGGGGATACTCCAACCCCAGATTTTATTTCCAAAAACACCAAT
* * * * *
26122 TTTCCTTTAATCGGGGATACTCTAA-CTCTGATTTTATTTCCAAAAACATCAAT
1 TTTCC-ATAATCGGGGATACTCCAACCCCAGATTTTATTTCCAAAAACACCAAT
* * *
26175 TTTTCACAATCGAGGATACTCCAACC
1 TTTCCATAATCGGGGATACTCCAACC
26201 TCGTTATTTC
Statistics
Matches: 64, Mismatches: 11, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
51 4 0.06
52 45 0.70
53 15 0.23
ACGTcount: A:0.31, C:0.25, G:0.10, T:0.34
Consensus pattern (53 bp):
TTTCCATAATCGGGGATACTCCAACCCCAGATTTTATTTCCAAAAACACCAAT
Found at i:26245 original size:28 final size:28
Alignment explanation
Indices: 26188--26259 Score: 83
Period size: 28 Copynumber: 2.6 Consensus size: 28
26178 TCACAATCGA
* * * *
26188 GGATACTCCAACCTCGTTATTTCATCGG
1 GGATACTCCAACCCCGTTACTCCATAGG
26216 GGATACTCCAACCCCGTTACCTCCA-AGG
1 GGATACTCCAACCCCGTTA-CTCCATAGG
*
26244 GGATACTCTAACCCCG
1 GGATACTCCAACCCCG
26260 GGTTTATTTC
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
28 35 0.92
29 3 0.08
ACGTcount: A:0.24, C:0.35, G:0.18, T:0.24
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTACTCCATAGG
Found at i:26307 original size:79 final size:79
Alignment explanation
Indices: 26216--26447 Score: 261
Period size: 79 Copynumber: 2.9 Consensus size: 79
26206 ATTTCATCGG
** * *
26216 GGATACTCCAACCCCGTTACCTCCAAGGGGATACTCTAACCCCGGGTTTATTTCCAAAATATTGA
1 GGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCCCGGTTTTATTTCCAAAATATTGA
**
26281 TTTCTCATAATTGA
66 TTTCTCATAACCGA
* * * * *
26295 GGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAATCCCGATTTTATTTCC-TAATGATCG
1 GGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCCCGGTTTTATTTCCAAAAT-ATTG
* * *
26359 ATTTTTCACAACCGG
65 ATTTCTCATAACCGA
* * *
26374 GGATACTCCAACCCCGTTATTTTCAAGGAGATACTCCAACCCC-GTTATTATCTCCAAAATATTA
1 GGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCCCGGTT-TTATTTCCAAAATATT-
*
26438 AATTTCTCAT
64 GATTTCTCAT
26448 CGGGACATAT
Statistics
Matches: 124, Mismatches: 25, Indels: 7
0.79 0.16 0.04
Matches are distributed among these distances:
78 5 0.04
79 109 0.88
80 10 0.08
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (79 bp):
GGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCCCGGTTTTATTTCCAAAATATTGA
TTTCTCATAACCGA
Found at i:26325 original size:107 final size:108
Alignment explanation
Indices: 26134--26338 Score: 268
Period size: 107 Copynumber: 1.9 Consensus size: 108
26124 TCCTTTAATC
* * * *
26134 GGGGATACTCTAACTCTGATTTTATTTCCAAAAACATCAATTTTTCACAATCGAGGATACTCCAA
1 GGGGATACTCTAACCCCGAGTTTATTTCCAAAAACATCAATTTCTCACAATCGAGGATACTCCAA
* **
26199 CCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACCTCCAA
66 CCCCGTTATTTCAGAGGGGATACTCCAACCCCGTTACCTCCAA
* * ** * *
26242 GGGGATACTCTAACCCCGGGTTTATTTCC-AAAATATTGATTTCTCATAATTGAGGATACTCCAA
1 GGGGATACTCTAACCCCGAGTTTATTTCCAAAAACATCAATTTCTCACAATCGAGGATACTCCAA
* *
26306 CCCCGTTATTTCCGAGGGGATACTCCAATCCCG
66 CCCCGTTATTTCAGAGGGGATACTCCAACCCCG
26339 ATTTTATTTC
Statistics
Matches: 82, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
107 57 0.70
108 25 0.30
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.30
Consensus pattern (108 bp):
GGGGATACTCTAACCCCGAGTTTATTTCCAAAAACATCAATTTCTCACAATCGAGGATACTCCAA
CCCCGTTATTTCAGAGGGGATACTCCAACCCCGTTACCTCCAA
Found at i:38732 original size:1 final size:1
Alignment explanation
Indices: 38726--38821 Score: 66
Period size: 1 Copynumber: 96.0 Consensus size: 1
38716 CTTCTTTTCT
* * * ** * * ** *
38726 AAAAAAAAAACAAAAACAAAAACAAAAGCAAAAAAAAAAAACAACAAAAAAACGAACAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * *
38791 CAAAAAAAAAACAAAGAAAAAAGAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
38822 GAATCTGCTT
Statistics
Matches: 69, Mismatches: 26, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 69 1.00
ACGTcount: A:0.85, C:0.10, G:0.04, T:0.00
Consensus pattern (1 bp):
A
Found at i:38746 original size:12 final size:11
Alignment explanation
Indices: 38726--38821 Score: 99
Period size: 11 Copynumber: 8.7 Consensus size: 11
38716 CTTCTTTTCT
38726 AAAAAAAAAAC
1 AAAAAAAAAAC
38737 AAAAACAAAAAC
1 AAAAA-AAAAAC
**
38749 --AAAAGCAA-
1 AAAAAAAAAAC
38757 AAAAAAAAAAC
1 AAAAAAAAAAC
*
38768 AACAAAAAAAC
1 AAAAAAAAAAC
38779 GAACAAAAAAAAC
1 -AA-AAAAAAAAC
38792 AAAAAAAAAAC
1 AAAAAAAAAAC
* *
38803 AAAGAAAAAAG
1 AAAAAAAAAAC
38814 AAAAAAAA
1 AAAAAAAA
38822 GAATCTGCTT
Statistics
Matches: 70, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
9 3 0.04
10 9 0.13
11 40 0.57
12 10 0.14
13 8 0.11
ACGTcount: A:0.85, C:0.10, G:0.04, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAC
Found at i:38772 original size:34 final size:35
Alignment explanation
Indices: 38726--38821 Score: 103
Period size: 34 Copynumber: 2.8 Consensus size: 35
38716 CTTCTTTTCT
**
38726 AAAAAAAA-AACAAAAACAA-AAACAAAAGCAA-AA
1 AAAAAAAACAACAAAAA-AACAAACAAAAAAAACAA
*
38759 AAAAAAAACAACAAAAAAACGAACAAAAAAAACAA
1 AAAAAAAACAACAAAAAAACAAACAAAAAAAACAA
*
38794 AAAAAAAACAA-AGAAAAAAGAAA-AAAAA
1 AAAAAAAACAACA-AAAAAACAAACAAAAA
38822 GAATCTGCTT
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
33 10 0.19
34 23 0.43
35 21 0.39
ACGTcount: A:0.85, C:0.10, G:0.04, T:0.00
Consensus pattern (35 bp):
AAAAAAAACAACAAAAAAACAAACAAAAAAAACAA
Found at i:39995 original size:55 final size:55
Alignment explanation
Indices: 39880--40715 Score: 904
Period size: 55 Copynumber: 14.5 Consensus size: 55
39870 TTCACCCTTT
* * *
39880 AGTCCTCAAAAAGCAGGACGCCTTTCGAAG-CCACACAAGTTGGTGGCACCTTT-C
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
* * * * *
39934 AATCCTCAAAGAGTAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCC
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
39989 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
40044 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
* * * * **
40099 AGTCCTCAAAAAGCAGGATGCTTTCTCTTTGCAAAGCCCACATAAGCTGGTGGCACCTT-C
1 AGTCCTCAAAGAGCAGGA--C--GC-CTTT-CAAAGCCCACACAAGTTGGTGGCATTTTCC
* *
40159 AGTCCTCAAAGAGCAGGACGCCTTTCCTTTTCAAAGCCCGCACGAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACG-----CC-TTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
* * * * * *
40220 AGTCCTCAAGGAGCAGGATGCCTTTCCTTTTCAAAGCCGACCCGAGTTGGTGGCATTTCCC
1 AGTCCTCAAAGAGCAGGA---C--GCC-TTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
*
40281 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGAGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
*
40336 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTAGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
* **
40391 AGTCCTCAAAGAGCAGGATGCTTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCC
1 AGTCCTCAAAGAGCAGGA--C--GC-CTTT-CAAAGCCCACACAAGTTGGTGGCATTTTCC
* * **
40452 AGTCCTCAAAGAACAGGACGCCTTTCCTTTTCAAAGCCCATATGAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACG-----CC-TTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
*
40513 AGTCCTCAAAAAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
* ** *
40568 AGTCCTCAAAGAGCAGGATGCTTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCAACTTCT
1 AGTCCTCAAAGAGCAGGA--C--GC-CTTT-CAAAGCCCACACAAGTTGGTGGCATTTTCC
* *
40629 AGTCCTCAAAGAGTAGGACGACTTTCCTTTGCAAAGCCCACACAAGTTGGTGGCATCTTCC
1 AGTCCTCAAAGAGCAGGACG-----CCTTT-CAAAGCCCACACAAGTTGGTGGCATTTTCC
* *
40690 AGTCCTCAAAAAGCAGGATGCCTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTC
40716 CTTTTCAAAG
Statistics
Matches: 671, Mismatches: 68, Indels: 85
0.81 0.08 0.10
Matches are distributed among these distances:
54 28 0.04
55 288 0.43
56 9 0.01
57 3 0.00
58 2 0.00
59 5 0.01
60 53 0.08
61 277 0.41
62 5 0.01
64 1 0.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (55 bp):
AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
Found at i:40184 original size:61 final size:59
Alignment explanation
Indices: 39880--40765 Score: 990
Period size: 61 Copynumber: 15.3 Consensus size: 59
39870 TTCACCCTTT
* * *
39880 AGTCCTCAAAAAGCAGGACG----CCTTTCGAAG-CCACACAAGTTGGTGGCACCTTT-C
1 AGTCCTCAAAGAGCAGGACGCTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
* * * * *
39934 AATCCTCAAAGAGTAGGACG----CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCC
1 AGTCCTCAAAGAGCAGGACGCTTTCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
39989 AGTCCTCAAAGAGCAGGACG----CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCTTTCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
40044 AGTCCTCAAAGAGCAGGACG----CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCTTTCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
* * * * **
40099 AGTCCTCAAAAAGCAGGATGCTTTCTCTTTGCAAAGCCCACATAAGCTGGTGGCACCTT-C
1 AGTCCTCAAAGAGCAGGACGCTTTC-CTTT-CAAAGCCCACACAAGTTGGTGGCATTTTCC
* *
40159 AGTCCTCAAAGAGCAGGACGCCTTTCCTTTTCAAAGCCCGCACGAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACG-CTTTCC-TTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
* * * * * *
40220 AGTCCTCAAGGAGCAGGATGCCTTTCCTTTTCAAAGCCGACCCGAGTTGGTGGCATTTCCC
1 AGTCCTCAAAGAGCAGGACG-CTTTCC-TTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
*
40281 AGTCCTCAAAGAGCAGGACG----CCTTTCAAAGCCCACACAAGTTGGAGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCTTTCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
*
40336 AGTCCTCAAAGAGCAGGACG----CCTTTCAAAGCCCACACAAGTAGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCTTTCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
* **
40391 AGTCCTCAAAGAGCAGGATGCTTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCC
1 AGTCCTCAAAGAGCAGGACGCTTTC-CTTT-CAAAGCCCACACAAGTTGGTGGCATTTTCC
* * **
40452 AGTCCTCAAAGAACAGGACGCCTTTCCTTTTCAAAGCCCATATGAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACG-CTTTCC-TTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
*
40513 AGTCCTCAAAAAGCAGGACG----CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCTTTCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
* ** *
40568 AGTCCTCAAAGAGCAGGATGCTTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCAACTTCT
1 AGTCCTCAAAGAGCAGGACGCTTTC-CTTT-CAAAGCCCACACAAGTTGGTGGCATTTTCC
* *
40629 AGTCCTCAAAGAGTAGGACGACTTTCCTTTGCAAAGCCCACACAAGTTGGTGGCATCTTCC
1 AGTCCTCAAAGAGCAGGACG-CTTTCCTTT-CAAAGCCCACACAAGTTGGTGGCATTTTCC
* * * ** *
40690 AGTCCTCAAAAAGCAGGATGCCTTTCCTTTTCAAAGCCTACATGAGTTGGTGGCACTTTT-T
1 AGTCCTCAAAGAGCAGGACG-CTTTCC-TTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
40751 AGTCCTCAAAGAGCA
1 AGTCCTCAAAGAGCA
40766 AGATGCACTT
Statistics
Matches: 729, Mismatches: 75, Indels: 49
0.85 0.09 0.06
Matches are distributed among these distances:
54 28 0.04
55 290 0.40
56 4 0.01
59 3 0.00
60 54 0.07
61 331 0.45
62 19 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (59 bp):
AGTCCTCAAAGAGCAGGACGCTTTCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
Found at i:40361 original size:27 final size:27
Alignment explanation
Indices: 40279--40361 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
40269 GTGGCATTTC
40279 CCAGTCCTCAAAGAGCAGGACGCCTTT
1 CCAGTCCTCAAAGAGCAGGACGCCTTT
* * * * ** * *
40306 CAAAGCCCACACA-AGTTGGAGGCATTTT
1 C-CAGTCCTCAAAGAGCAGGACGC-CTTT
40334 CCAGTCCTCAAAGAGCAGGACGCCTTT
1 CCAGTCCTCAAAGAGCAGGACGCCTTT
40361 C
1 C
40362 AAAGCCCACA
Statistics
Matches: 37, Mismatches: 16, Indels: 6
0.63 0.27 0.10
Matches are distributed among these distances:
27 19 0.51
28 18 0.49
ACGTcount: A:0.28, C:0.31, G:0.22, T:0.19
Consensus pattern (27 bp):
CCAGTCCTCAAAGAGCAGGACGCCTTT
Found at i:40512 original size:177 final size:175
Alignment explanation
Indices: 39910--40715 Score: 1043
Period size: 177 Copynumber: 4.6 Consensus size: 175
39900 CCTTTCGAAG
* * *
39910 CCACACAAGTTGGTGGCACCTTTCAATCCTCAAAGAGTAGGACG----CCTTTT-AAAGCCCACA
1 CCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACGCTTTCCTTTTCAAAGCCCACA
* *
39970 CAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTG
66 CAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTG
*
40035 GCATTTTCCAGTCCTCAAAGAGCAGGA--C--GCCTTT-CAAAGC
131 GCATTTTCCAGTCCTCAAAGAGCAGGATGCTTTCCTTTGCAAAGC
** * * *
40075 CCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAAAGCAGGATGCTTTCTCTTTGCAAAGCCCAC
1 CCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACGCTTTC-CTTTTCAAAGCCCAC
* * ** * *
40140 ATAAGCTGGTGGCACCTT-CAGTCCTCAAAGAGCAGGACGCCTTTCCTTTTCAAAGCCCGCACGA
65 ACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACG-----CC-TTTCAAAGCCCACACAA
* *
40204 GTTGGTGGCATTTTCCAGTCCTCAAGGAGCAGGATGCCTTTCCTTTTCAAAGC
124 GTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATG-CTTTCCTTTGCAAAGC
* * * *
40257 CGACCCGAGTTGGTGGCA-TTTCCCAGTCCTCAAAGAGCAGGACG----CC-TTTCAAAGCCCAC
1 CCACACAAGTTGGTGGCACCTT-CCAGTCCTCAAAGAGCAGGACGCTTTCCTTTTCAAAGCCCAC
* *
40316 ACAAGTTGGAGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTAGGT
65 ACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGT
40381 GGCATTTTCCAGTCCTCAAAGAGCAGGATGCTTTCTCTTTGCAAAGC
130 GGCATTTTCCAGTCCTCAAAGAGCAGGATGCTTTC-CTTTGCAAAGC
* *
40428 CCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAACAGGACGCCTTTCCTTTTCAAAGCCCAT
1 CCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACG-CTTTCCTTTTCAAAGCCCAC
** *
40493 ATGAGTTGGTGGCATTTTCCAGTCCTCAAAAAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGT
65 ACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGT
40558 GGCATTTTCCAGTCCTCAAAGAGCAGGATGCTTTCTCTTTGCAAAGC
130 GGCATTTTCCAGTCCTCAAAGAGCAGGATGCTTTC-CTTTGCAAAGC
* * * *
40605 CCACACAAGTTGGTGGCAACTTCTAGTCCTCAAAGAGTAGGACGACTTTCCTTTGCAAAGCCCAC
1 CCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACG-CTTTCCTTTTCAAAGCCCAC
* * *
40670 ACAAGTTGGTGGCATCTTCCAGTCCTCAAAAAGCAGGATGCCTTTC
65 ACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTTTC
40716 CTTTTCAAAG
Statistics
Matches: 559, Mismatches: 54, Indels: 44
0.85 0.08 0.07
Matches are distributed among these distances:
165 37 0.07
169 1 0.00
170 30 0.05
171 118 0.21
172 4 0.01
175 2 0.00
176 75 0.13
177 241 0.43
178 1 0.00
179 1 0.00
181 8 0.01
182 41 0.07
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (175 bp):
CCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACGCTTTCCTTTTCAAAGCCCACA
CAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTG
GCATTTTCCAGTCCTCAAAGAGCAGGATGCTTTCCTTTGCAAAGC
Found at i:41509 original size:11 final size:11
Alignment explanation
Indices: 41480--41509 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
41470 TTGGAAAATA
*
41480 AAAAAAAATTT
1 AAAAAAATTTT
41491 AAAAAAATTTT
1 AAAAAAATTTT
41502 AAAAAAAT
1 AAAAAAAT
41510 ACATTTTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
AAAAAAATTTT
Found at i:41641 original size:19 final size:18
Alignment explanation
Indices: 41617--41679 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
41607 AAATCGTAAA
41617 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGT-T
41636 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
41649 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG-TT
41668 TGTATCGATACA
1 TGTATCGATACA
41680 ATGTATCGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
15 2 0.05
17 2 0.05
19 23 0.61
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:41654 original size:13 final size:13
Alignment explanation
Indices: 41636--41660 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
41626 ACATAAGTGT
41636 TGTATCGATACAA
1 TGTATCGATACAA
41649 TGTATCGATACA
1 TGTATCGATACA
41661 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:41656 original size:32 final size:32
Alignment explanation
Indices: 41615--41687 Score: 137
Period size: 32 Copynumber: 2.3 Consensus size: 32
41605 ACAAATCGTA
41615 AATGTATCGATACATAAGTGTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
*
41647 AATGTATCGATACATAAGTTTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
41679 AATGTATCG
1 AATGTATCG
41688 CTACGAAGCT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (32 bp):
AATGTATCGATACATAAGTGTTGTATCGATAC
Found at i:43476 original size:11 final size:11
Alignment explanation
Indices: 43457--43486 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
43447 AACTTTGAAA
43457 ATATTTTTTTG
1 ATATTTTTTTG
43468 A-ATTTTTTTG
1 ATATTTTTTTG
43478 ATATTTTTT
1 ATATTTTTT
43487 CCTCAAAGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (11 bp):
ATATTTTTTTG
Found at i:44150 original size:51 final size:51
Alignment explanation
Indices: 44094--44225 Score: 167
Period size: 50 Copynumber: 2.6 Consensus size: 51
44084 TTAAGTTTCT
* * *
44094 CAATTTCTCATAATCTGGGATACTCCAACCCCGGTTTTATTTTCAAAA-CAC
1 CAATTTTTCATAATC-GGGATACTCCAACCCCGATTTTATTTCCAAAATCAC
** * *
44145 CAATTTTTTTTAATGGGGATACTCCAACTCCGATTTTATTTCCAAAATCAC
1 CAATTTTTCATAATCGGGATACTCCAACCCCGATTTTATTTCCAAAATCAC
*
44196 CAATTTTTCACAATCGAGGATACTCCAACC
1 CAATTTTTCATAATCG-GGATACTCCAACC
44226 TCGTTATTTC
Statistics
Matches: 67, Mismatches: 12, Indels: 3
0.82 0.15 0.04
Matches are distributed among these distances:
50 29 0.43
51 26 0.39
52 12 0.18
ACGTcount: A:0.30, C:0.26, G:0.10, T:0.34
Consensus pattern (51 bp):
CAATTTTTCATAATCGGGATACTCCAACCCCGATTTTATTTCCAAAATCAC
Found at i:44354 original size:79 final size:78
Alignment explanation
Indices: 44240--44419 Score: 195
Period size: 79 Copynumber: 2.3 Consensus size: 78
44230 TATTTCATCG
** *
44240 GGGATACTCCAACCCCGTTACCTCCGATGGGATACTCCAA-CACCGGCTTTATTTCCAAAAT-AT
1 GGGATACTCCAACCCCGTTATTTCCGATGGGATACTCCAATC-CCGACTTTATTTCC-AAATCAT
* * *
44303 TGATTTCTCATAATTA
64 CGATTTCTCACAA-CA
* * *
44319 GGGATACTCCAACCCCGTTATTTCTGA-GGGAATACTCCAATCCCGATTTTATTTCCTAATCATC
1 GGGATACTCCAACCCCGTTATTTCCGATGGG-ATACTCCAATCCCGACTTTATTTCCAAATCATC
* *
44383 GATTTTTCACAACC
65 GATTTCTCACAACA
44397 GAGGATACTCCAACCCCGTTATT
1 G-GGATACTCCAACCCCGTTATT
44420 ATCTCCAAAA
Statistics
Matches: 86, Mismatches: 11, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
78 7 0.08
79 78 0.91
80 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.14, T:0.31
Consensus pattern (78 bp):
GGGATACTCCAACCCCGTTATTTCCGATGGGATACTCCAATCCCGACTTTATTTCCAAATCATCG
ATTTCTCACAACA
Found at i:44354 original size:107 final size:108
Alignment explanation
Indices: 44160--44363 Score: 254
Period size: 107 Copynumber: 1.9 Consensus size: 108
44150 TTTTTTAATG
* * * *
44160 GGGATACTCCAACTCCGATTTTATTTCCAAAATCACCAATTTTTCACAATCGAGGATACTCCAAC
1 GGGATACTCCAACACCGACTTTATTTCCAAAATCACCAATTTCTCACAATAGAGGATACTCCAAC
*
44225 CTCGTTATTTCATCGGGGATACTCCAACCCCGTTACCTCCGAT
66 CCCGTTATTTCATCGGGGATACTCCAACCCCGTTACCTCCGAT
* *** *
44268 GGGATACTCCAACACCGGCTTTATTTCCAAAAT-ATTGATTTCTCATAATTAG-GGATACTCCAA
1 GGGATACTCCAACACCGACTTTATTTCCAAAATCACCAATTTCTCACAA-TAGAGGATACTCCAA
*
44331 CCCCGTTATTTC-T-GAGGGAATACTCCAATCCCG
65 CCCCGTTATTTCATCG-GGG-ATACTCCAACCCCG
44364 ATTTTATTTC
Statistics
Matches: 82, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
105 1 0.01
106 4 0.05
107 45 0.55
108 32 0.39
ACGTcount: A:0.27, C:0.28, G:0.14, T:0.30
Consensus pattern (108 bp):
GGGATACTCCAACACCGACTTTATTTCCAAAATCACCAATTTCTCACAATAGAGGATACTCCAAC
CCCGTTATTTCATCGGGGATACTCCAACCCCGTTACCTCCGAT
Found at i:52672 original size:13 final size:13
Alignment explanation
Indices: 52654--52705 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
52644 AGCTTCGTAG
52654 CGATACATTGTAT
1 CGATACATTGTAT
52667 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
52686 CGATACATTGTAT
1 CGATACATTGTAT
52699 CGATACA
1 CGATACA
52706 ACACTTATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 17 0.52
15 2 0.06
16 2 0.06
17 2 0.06
19 10 0.30
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:52686 original size:19 final size:19
Alignment explanation
Indices: 52662--52747 Score: 76
Period size: 19 Copynumber: 4.7 Consensus size: 19
52652 AGCGATACAT
52662 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
52681 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
*
52694 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
** *
52713 TGTATCGATACATTTACTGTT
1 TGTATCGATACA-AAACT-TA
52734 TGTATCGATACAAA
1 TGTATCGATACAAA
52748 TTATTGAAAT
Statistics
Matches: 54, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
13 11 0.20
14 1 0.02
16 2 0.04
18 1 0.02
19 23 0.43
20 3 0.06
21 13 0.24
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.36
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:52695 original size:32 final size:32
Alignment explanation
Indices: 52654--52726 Score: 137
Period size: 32 Copynumber: 2.3 Consensus size: 32
52644 AGCTTCGTAG
52654 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
52686 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
52718 CGATACATT
1 CGATACATT
52727 TACTGTTTGT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:62315 original size:13 final size:13
Alignment explanation
Indices: 62297--62321 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
62287 CAAAGATCAG
62297 TGTATCGATACAA
1 TGTATCGATACAA
62310 TGTATCGATACA
1 TGTATCGATACA
62322 TTTGAATAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:62398 original size:19 final size:18
Alignment explanation
Indices: 62374--62436 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 18
62364 AGCGATACAT
62374 TGTATCGATACAAAACGTA
1 TGTATCGATAC-AAACGTA
62393 TGTATCGATAC--A--T-
1 TGTATCGATACAAACGTA
*
62406 TGTATCGATATAACACGTA
1 TGTATCGATACAA-ACGTA
62425 TGTATCGATACA
1 TGTATCGATACA
62437 TTATATCGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 10 0.28
14 1 0.03
16 2 0.06
18 1 0.03
19 22 0.61
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.32
Consensus pattern (18 bp):
TGTATCGATACAAACGTA
Found at i:62404 original size:32 final size:32
Alignment explanation
Indices: 62366--62451 Score: 145
Period size: 32 Copynumber: 2.7 Consensus size: 32
62356 AGCTTCGTAG
62366 CGATACATTGTATCGATACAAAACGTATGTAT
1 CGATACATTGTATCGATACAAAACGTATGTAT
* *
62398 CGATACATTGTATCGATATAACACGTATGTAT
1 CGATACATTGTATCGATACAAAACGTATGTAT
*
62430 CGATACATTATATCGATACAAA
1 CGATACATTGTATCGATACAAA
62452 TCGTTGAAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 49 1.00
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.31
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACGTATGTAT
Found at i:62411 original size:13 final size:13
Alignment explanation
Indices: 62393--62449 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
62383 ACAAAACGTA
62393 TGTATCGATACAT
1 TGTATCGATACAT
62406 TGTATCGATATAACACGT
1 TGTATCG--AT-ACA--T
62424 ATGTATCGATACAT
1 -TGTATCGATACAT
*
62438 TATATCGATACA
1 TGTATCGATACA
62450 AATCGTTGAA
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 18 0.49
14 1 0.03
15 2 0.05
16 6 0.16
17 2 0.05
18 1 0.03
19 7 0.19
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:64688 original size:29 final size:29
Alignment explanation
Indices: 64650--64723 Score: 121
Period size: 29 Copynumber: 2.5 Consensus size: 29
64640 ATAATAATTA
64650 TAATTAAATATATTTTTAAATGATTATAAT
1 TAATT-AATATATTTTTAAATGATTATAAT
* *
64680 TAGTTAATATATTTTTAAATTATTATAAT
1 TAATTAATATATTTTTAAATGATTATAAT
64709 TAATTAATATATTTT
1 TAATTAATATATTTT
64724 AAAAATTAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
29 37 0.90
30 4 0.10
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (29 bp):
TAATTAATATATTTTTAAATGATTATAAT
Found at i:66853 original size:18 final size:16
Alignment explanation
Indices: 66814--66853 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 16
66804 AGATATTGCC
66814 TTAATTTTTTAAAAAT
1 TTAATTTTTTAAAAAT
66830 TCTAATTTTGTTAAAAAT
1 T-TAATTTT-TTAAAAAT
66848 ATTAAT
1 -TTAAT
66854 GGATAAACTG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
16 1 0.05
17 7 0.33
18 12 0.57
19 1 0.05
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (16 bp):
TTAATTTTTTAAAAAT
Found at i:68215 original size:20 final size:18
Alignment explanation
Indices: 68171--68222 Score: 50
Period size: 20 Copynumber: 2.7 Consensus size: 18
68161 ATGAATAATT
68171 ATATATAACAAAATCAAA
1 ATATATAACAAAATCAAA
* *
68189 ATCATATGACAAAAATTAACA
1 AT-ATATAAC-AAAATCAA-A
68210 ATATATCAACAAA
1 ATATAT-AACAAA
68223 TAACATATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
18 2 0.07
19 6 0.22
20 14 0.52
21 5 0.19
ACGTcount: A:0.62, C:0.13, G:0.02, T:0.23
Consensus pattern (18 bp):
ATATATAACAAAATCAAA
Found at i:70337 original size:2 final size:2
Alignment explanation
Indices: 70330--70363 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
70320 TCGTTTCATT
*
70330 TC TC TC TC TC CC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
70364 GCTATATATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (2 bp):
TC
Found at i:70371 original size:2 final size:2
Alignment explanation
Indices: 70366--70401 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
70356 TCTCTCTCGC
70366 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
70402 AGGACTTTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:71020 original size:2 final size:2
Alignment explanation
Indices: 71015--71046 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
71005 GTTGAATAGA
*
71015 AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
71047 GTGATTGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:71554 original size:16 final size:16
Alignment explanation
Indices: 71513--71558 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
71503 TATAAAAGAA
*
71513 AATATTTTATATATTTT
1 AATA-TTTATAAATTTT
71530 -ATA-TT-TAAATTTT
1 AATATTTATAAATTTT
71543 AATATTTATAAATTTT
1 AATATTTATAAATTTT
71559 TTATCTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
13 7 0.28
14 5 0.20
15 2 0.08
16 11 0.44
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
AATATTTATAAATTTT
Found at i:71557 original size:22 final size:22
Alignment explanation
Indices: 71516--71557 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
71506 AAAAGAAAAT
*
71516 ATTTTATATATTTTATATTTAA
1 ATTTTATATATTTTAAATTTAA
71538 ATTTTA-ATATTTATAAATTT
1 ATTTTATATATTT-TAAATTT
71558 TTTATCTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
ATTTTATATATTTTAAATTTAA
Found at i:71568 original size:31 final size:30
Alignment explanation
Indices: 71513--71571 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
71503 TATAAAAGAA
*
71513 AATATTTTATATATTTTATATTTAAATTTT
1 AATATTTTAAATATTTTATATTTAAATTTT
* *
71543 AATATTTATAAATTTTTTATCTTTAAATT
1 AATATTT-TAAATATTTTATATTTAAATT
71572 AAATTTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 7 0.28
31 18 0.72
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (30 bp):
AATATTTTAAATATTTTATATTTAAATTTT
Found at i:71571 original size:15 final size:14
Alignment explanation
Indices: 71515--71571 Score: 51
Period size: 15 Copynumber: 3.8 Consensus size: 14
71505 TAAAAGAAAA
* *
71515 TATTTTATATATTT
1 TATTTTAAATTTTT
*
71529 TATATTTAAATTTTAA
1 TAT-TTTAAATTTT-T
71545 TATTTATAAATTTTT
1 TATTT-TAAATTTTT
71560 TATCTTTAAATT
1 TAT-TTTAAATT
71572 AAATTTTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
14 3 0.09
15 19 0.54
16 13 0.37
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (14 bp):
TATTTTAAATTTTT
Found at i:71573 original size:29 final size:29
Alignment explanation
Indices: 71513--71580 Score: 73
Period size: 31 Copynumber: 2.3 Consensus size: 29
71503 TATAAAAGAA
*
71513 AATATTTTATATATTTTATATTTAAATTTT
1 AATATTTTAAATATTTTATATTTAAA-TTT
* * *
71543 AATATTTATAAATTTTTTATCTTTAAATTA
1 AATATTT-TAAATATTTTATATTTAAATTT
*
71573 AATTTTTT
1 AATATTTT
71581 TATATAAAAC
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
29 1 0.03
30 15 0.47
31 16 0.50
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (29 bp):
AATATTTTAAATATTTTATATTTAAATTT
Found at i:72194 original size:15 final size:15
Alignment explanation
Indices: 72176--72223 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
72166 ATATTATAAT
72176 ATTTTATATAAATTA
1 ATTTTATATAAATTA
*
72191 ATTTTTTATAAA--A
1 ATTTTATATAAATTA
* *
72204 AATTTAAATAAATTA
1 ATTTTATATAAATTA
72219 ATTTT
1 ATTTT
72224 TTTTATGTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
13 10 0.38
15 16 0.62
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
ATTTTATATAAATTA
Found at i:72329 original size:13 final size:13
Alignment explanation
Indices: 72311--72343 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
72301 ATTAATAAAA
72311 AAATTTTAATTAT
1 AAATTTTAATTAT
72324 AAATTTTAATTAT
1 AAATTTTAATTAT
*
72337 TAATTTT
1 AAATTTT
72344 TTTTTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
AAATTTTAATTAT
Found at i:72351 original size:25 final size:25
Alignment explanation
Indices: 72323--72370 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
72313 ATTTTAATTA
* *
72323 TAAATTTTAATTATTAATTTTTTTT
1 TAAATTTAAATTATTAAATTTTTTT
*
72348 TAAATTTAAATTTTTAAATTTTT
1 TAAATTTAAATTATTAAATTTTT
72371 AATATTAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (25 bp):
TAAATTTAAATTATTAAATTTTTTT
Found at i:72397 original size:18 final size:18
Alignment explanation
Indices: 72374--72409 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
72364 AATTTTTAAT
* *
72374 ATTAAATATATTATTTTA
1 ATTAAATACATAATTTTA
72392 ATTAAATACATAATTTTA
1 ATTAAATACATAATTTTA
72410 TTCAAAATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (18 bp):
ATTAAATACATAATTTTA
Found at i:72648 original size:19 final size:19
Alignment explanation
Indices: 72624--72682 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
72614 TTTTTTAAAA
72624 ATAAAATTAATTATTTATT
1 ATAAAATTAATTATTTATT
**
72643 ATAAAAATT-ATTATAAATT
1 AT-AAAATTAATTATTTATT
*
72662 ACTAAAA-TAAATATTTATT
1 A-TAAAATTAATTATTTATT
72681 AT
1 AT
72683 TTAATTAATA
Statistics
Matches: 32, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
18 2 0.06
19 23 0.72
20 7 0.22
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (19 bp):
ATAAAATTAATTATTTATT
Found at i:73648 original size:12 final size:12
Alignment explanation
Indices: 73633--73670 Score: 58
Period size: 12 Copynumber: 3.1 Consensus size: 12
73623 TACTTATATT
73633 TATATCAAAATA
1 TATATCAAAATA
73645 TATATCAAATATA
1 TATATCAAA-ATA
*
73658 AATATCAAAATA
1 TATATCAAAATA
73670 T
1 T
73671 TAATATTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 12 0.52
13 11 0.48
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (12 bp):
TATATCAAAATA
Found at i:81707 original size:17 final size:17
Alignment explanation
Indices: 81682--81723 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
81672 TGACATATTT
81682 TTATA-TTTGTGGCATG
1 TTATATTTTGTGGCATG
* *
81698 TTATATTTTGTGTCGTG
1 TTATATTTTGTGGCATG
*
81715 TTATGTTTT
1 TTATATTTT
81724 CATTATTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.14, C:0.05, G:0.21, T:0.60
Consensus pattern (17 bp):
TTATATTTTGTGGCATG
Found at i:83025 original size:15 final size:16
Alignment explanation
Indices: 82996--83029 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
82986 AGTATTATAA
82996 ATTTATATAAAATTTT
1 ATTTATATAAAATTTT
*
83012 ATTTATATAAATTTTT
1 ATTTATATAAAATTTT
83028 AT
1 AT
83030 ATGTTAATAG
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:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
ATTTATATAAAATTTT
Found at i:85831 original size:60 final size:59
Alignment explanation
Indices: 85696--85875 Score: 211
Period size: 60 Copynumber: 3.0 Consensus size: 59
85686 CGTGCTTGCT
* **
85696 TGCTTGTTGGAGCTACTGTTGCTGCTGCTGCGCTG-TTGTTTG-GCTGCTGTTCATGCTTGCC
1 TGCTTGTTGGAGCTACTGTTGCTGCTGC--CG-TGCTTGTTGGAGCTGCTGTTGTTGC-TGCC
* * * *
85757 TGCTTGTTGGAGCTATTGTTGCTGTTACCGTGCTTGTTGGAGCTGCTATTGTTGCTGCC
1 TGCTTGTTGGAGCTACTGTTGCTGCTGCCGTGCTTGTTGGAGCTGCTGTTGTTGCTGCC
* * *
85816 GTGCTTGTTGGAGCTACTATTGCTGCTGCCATGCTTGTTGGAGCTGTTGTTGTTGCTGCC
1 -TGCTTGTTGGAGCTACTGTTGCTGCTGCCGTGCTTGTTGGAGCTGCTGTTGTTGCTGCC
85876 ATGGAAGATG
Statistics
Matches: 102, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
58 2 0.02
59 12 0.12
60 63 0.62
61 25 0.25
ACGTcount: A:0.07, C:0.21, G:0.31, T:0.41
Consensus pattern (59 bp):
TGCTTGTTGGAGCTACTGTTGCTGCTGCCGTGCTTGTTGGAGCTGCTGTTGTTGCTGCC
Found at i:85873 original size:30 final size:30
Alignment explanation
Indices: 85696--85878 Score: 140
Period size: 30 Copynumber: 6.1 Consensus size: 30
85686 CGTGCTTGCT
* *
85696 TGCTTGTTGGAGCTACTGTTGCTGCTGCTGCGC
1 TGCTTGTTGGAGCTACTATTGCTGCTGC--C-A
* * *
85729 TG-TTGTTTG-GCTGCTGTT-CATGCTTGCC-
1 TGCTTGTTGGAGCTACTATTGC-TGC-TGCCA
* * * * *
85757 TGCTTGTTGGAGCTATTGTTGCTGTTACCG
1 TGCTTGTTGGAGCTACTATTGCTGCTGCCA
* * *
85787 TGCTTGTTGGAGCTGCTATTGTTGCTGCCG
1 TGCTTGTTGGAGCTACTATTGCTGCTGCCA
85817 TGCTTGTTGGAGCTACTATTGCTGCTGCCA
1 TGCTTGTTGGAGCTACTATTGCTGCTGCCA
** * *
85847 TGCTTGTTGGAGCTGTTGTTGTTGCTGCCA
1 TGCTTGTTGGAGCTACTATTGCTGCTGCCA
85877 TG
1 TG
85879 GAAGATGCTA
Statistics
Matches: 124, Mismatches: 20, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
28 2 0.02
29 9 0.07
30 90 0.73
31 12 0.10
32 9 0.07
33 2 0.02
ACGTcount: A:0.08, C:0.20, G:0.31, T:0.41
Consensus pattern (30 bp):
TGCTTGTTGGAGCTACTATTGCTGCTGCCA
Found at i:86774 original size:3 final size:3
Alignment explanation
Indices: 86768--86805 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
86758 TTTATTTTTC
86768 ATT ATT ATT ATT ATT ATT ATT ATT A-T ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
86806 TTTGTTTATT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:87348 original size:42 final size:42
Alignment explanation
Indices: 87285--88615 Score: 680
Period size: 42 Copynumber: 31.6 Consensus size: 42
87275 AAGAAAATAT
* * * **
87285 TCTCCAGGCTCAAAGCTGACAGACAGACTTTAGATAAGACTG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTTTAGATAAGAAAG
* * *
87327 TCTCCAGGGTCAAAGCCGACAGGTAGAC-TGAGGGATAGGAAAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTTTA--GATAAGAAAG
** ** **
87370 TCTTTAGGGTCAAAGCCGACAGATAGACTTTAGATAAGGCAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTTTAGATAAGAAAG
* * * ** **
87412 TCTCTAGGGTCAAAGCTGACAGGTAGACTTTAGATGGGGTAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTTTAGATAAGAAAG
* ** *
87454 TCTCCAAGGTCAAAGCCGACAGATAGAC-TGAGGATAAGAAAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTTTA-GATAAGAAAG
* **
87496 TCTCCAGGGTCAAAGCCGACAGGCAGACTTTAGATGAGGCAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTTTAGATAAGAAAG
* * * * * *
87538 TCTCCAGGGTCAAAGTCGATAGGTAGA-TTGAGGGTAGGAAAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTTTA-GATAAGAAAG
* * * **
87580 TCTCCAGAGTCAAAGTCGACAGGCAGACTTTAAATAAGGCAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTTTAGATAAGAAAG
* * * * * *
87622 TCTCTAGGGCCAAAGTCGATAGGCAGAC-TAAGGGATAGGAAAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTTTA--GATAAGAAAG
* * * **
87665 T-TCTAGGGTCAAAGCCAACAGGCAAACTTTAGATAAGGTAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTTTAGATAAGAAAG
* * * * * **
87706 TCTCTAGGGTCAAAGCTGACAAGTAGACTTTAGATAGGGTAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTTTAGATAAGAAAG
* * ** * * *
87748 TCTCTAAGGTCAAAGTAGACAGGCAGAC-TGAGGGTAGGAAAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTTTA-GATAAGAAAG
* ** * * **
87790 TCTTCAGGGTCAAAGCCGACAGATAGACTTTAAATGAGGTAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTTTAGATAAGAAAG
* * * * ** *
87832 TCTTCAGGGTCAAAGCTGACAGACAGAC-TGAGAGTGGGAAAA
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTTTAGA-TAAGAAAG
* * *
87874 TCTCTAGGGTCAAAACCGACAGGCAGAC-TAAGGGAT-AGAATAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTTTA--GATAAGAA-AG
* * ** **
87917 TCTCCAAGGTCAAAGCCGACAGACAGACTTTAGATGGGGTAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTTTAGATAAGAAAG
* ** * * *
87959 TTTCC-GAGGTCAAAGTTGACAGGCACAC-TAAGGGTAAGAAAG
1 TCTCCAG-GGTCAAAGCCGACAGGCAGACTTTA-GATAAGAAAG
* * * * **
88001 TCTCCAGGGTCAAAGCCGATAGACAAACTTTAGATGAGGTAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTTTAGATAAGAAAG
* * * * * * *
88043 TCTCTAAGGTCAAAGCTGATAGGCAGAC-TAAGGGTAGGAAAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTTTA-GATAAGAAAG
* * * * * * **
88085 TCTCGAAGGTTAAAGCCAATAGGCAGACTTTAGATGAGGTAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTTTAGATAAGAAAG
* * ** * *
88127 TCTCCAGGGTTAAAGTCGACAGGCAGAC-CGAGGGTAGGAAAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTTTA-GATAAGAAAG
* * **
88169 TCTCTAGGGTTAAAGCCGACAGGCAGACTTTAGATAAGGCAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTTTAGATAAGAAAG
* * * * *
88211 CCTCCAAGGTCAAAGCCGACAGGCAGA-TTAAGGGTAGGAAAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTTTA-GATAAGAAAG
* * * * * *
88253 CCTCTAGGGTCAAAACCGACAAGCAGAC-TGAGGGATAGGAAAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTTTA--GATAAGAAAG
* * * ** **
88296 TCTCTAAGGTCAAAGCCGATAGGTTGACTTTAGATAAGGCAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTTTAGATAAGAAAG
* * * * ** **
88338 TCTCTAAGTTCAAAGCCGACAGGTAGACTTTAGATGGGGTAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTTTAGATAAGAAAG
* ** * * *
88380 TCTCCAAGGTCAAAGCCGACCTGCAGAC-TGAGGGTAGGAAAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTTTA-GATAAGAAAG
** * * * **
88422 TCTGTAGGGTCAAAGCCAACAGGTAGACTTTAGATGAGGCAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTTTAGATAAGAAAG
* ** * * * *
88464 TCTCTAGGGTCAAAGTTGAGAGGCAGA-TTGAGGGTAGGAAAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTTTA-GATAAGAAAG
* * * * *
88506 TCTTCAAGGTCAAAGCCAACAGGCAGACTTTAGATGAGACAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTTTAGATAAGAAAG
* * ** * ** * *
88548 CCTCCAAGGTCAAAGTTGACAGGTAGACTGAAGGTAGGAAAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTTTAGATAAGAAAG
* * *
88590 TTTCCAGGGTCAAAGCTGACAAGCAG
1 TCTCCAGGGTCAAAGCCGACAGGCAG
88616 GGTCAAAGCC
Statistics
Matches: 967, Mismatches: 287, Indels: 70
0.73 0.22 0.05
Matches are distributed among these distances:
41 35 0.04
42 807 0.83
43 117 0.12
44 8 0.01
ACGTcount: A:0.33, C:0.18, G:0.29, T:0.19
Consensus pattern (42 bp):
TCTCCAGGGTCAAAGCCGACAGGCAGACTTTAGATAAGAAAG
Found at i:87498 original size:84 final size:84
Alignment explanation
Indices: 87410--88615 Score: 896
Period size: 84 Copynumber: 14.3 Consensus size: 84
87400 TAGATAAGGC
* * *
87410 AGTCTCTAGGGTCAAAGCTGACAGGTAGACTTTAGATGGGGTAGTCTCCAAGGTCAAAGCCGACA
1 AGTCTCTAGGGTCAAAGCCGACAGGCAGACTTTAGATGAGGTAGTCTCCAAGGTCAAAGCCGACA
** *
87475 GATAGACTGAGGATAAGAA
66 GGCAGACTGAGGATAGGAA
* * * * *
87494 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTTTAGATGAGGCAGTCTCCAGGGTCAAAGTCGATA
1 AGTCTCTAGGGTCAAAGCCGACAGGCAGACTTTAGATGAGGTAGTCTCCAAGGTCAAAGCCGACA
* * *
87559 GGTAGATTGAGGGTAGGAA
66 GGCAGACTGAGGATAGGAA
* * * * * * * * * * *
87578 AGTCTCCAGAGTCAAAGTCGACAGGCAGACTTTAAATAAGGCAGTCTCTAGGGCCAAAGTCGATA
1 AGTCTCTAGGGTCAAAGCCGACAGGCAGACTTTAGATGAGGTAGTCTCCAAGGTCAAAGCCGACA
*
87643 GGCAGACTAAGGGATAGGAA
66 GGCAGACTGA-GGATAGGAA
* * * * * *
87663 AGT-TCTAGGGTCAAAGCCAACAGGCAAACTTTAGATAAGGTAGTCTCTAGGGTCAAAGCTGACA
1 AGTCTCTAGGGTCAAAGCCGACAGGCAGACTTTAGATGAGGTAGTCTCCAAGGTCAAAGCCGACA
* * * **
87727 AGTAGACTTTA-GATAGGGT
66 GGCAGAC-TGAGGATAGGAA
* ** * * * * *
87746 AGTCTCTAAGGTCAAAGTAGACAGGCAGAC-TGAG-GGTAGGAAAGTCTTCAGGGTCAAAGCCGA
1 AGTCTCTAGGGTCAAAGCCGACAGGCAGACTTTAGATG-AGG-TAGTCTCCAAGGTCAAAGCCGA
** * * *
87809 CAGATAGACTTTA-AATGAGG-T
64 CAGGCAGAC-TGAGGAT-AGGAA
* * * * * * * *
87830 AGTCT-TCAGGGTCAAAGCTGACAGACAGAC-TGAGAGTG-GGAAAATCTCTAGGGTCAAAACCG
1 AGTCTCT-AGGGTCAAAGCCGACAGGCAGACTTTAGA-TGAGG-TAGTCTCCAAGGTCAAAGCCG
*
87892 ACAGGCAGACTAAGGGATA-GAA
63 ACAGGCAGACTGA-GGATAGGAA
* * * * * * **
87914 TAGTCTCCAAGGTCAAAGCCGACAGACAGACTTTAGATGGGGTAGTTTCCGAGGTCAAAGTTGAC
1 -AGTCTCTAGGGTCAAAGCCGACAGGCAGACTTTAGATGAGGTAGTCTCCAAGGTCAAAGCCGAC
* * * *
87979 AGGCACACTAAGGGTAAGAA
65 AGGCAGACTGAGGATAGGAA
* * * * * * *
87999 AGTCTCCAGGGTCAAAGCCGATAGACAAACTTTAGATGAGGTAGTCTCTAAGGTCAAAGCTGATA
1 AGTCTCTAGGGTCAAAGCCGACAGGCAGACTTTAGATGAGGTAGTCTCCAAGGTCAAAGCCGACA
* *
88064 GGCAGACTAAGGGTAGGAA
66 GGCAGACTGAGGATAGGAA
* * * * * * * *
88083 AGTCTCGAAGGTTAAAGCCAATAGGCAGACTTTAGATGAGGTAGTCTCCAGGGTTAAAGTCGACA
1 AGTCTCTAGGGTCAAAGCCGACAGGCAGACTTTAGATGAGGTAGTCTCCAAGGTCAAAGCCGACA
* *
88148 GGCAGACCGAGGGTAGGAA
66 GGCAGACTGAGGATAGGAA
* * * *
88167 AGTCTCTAGGGTTAAAGCCGACAGGCAGACTTTAGATAAGGCAGCCTCCAAGGTCAAAGCCGACA
1 AGTCTCTAGGGTCAAAGCCGACAGGCAGACTTTAGATGAGGTAGTCTCCAAGGTCAAAGCCGACA
* * *
88232 GGCAGATTAAGGGTAGGAA
66 GGCAGACTGAGGATAGGAA
* * * * * *
88251 AGCCTCTAGGGTCAAAACCGACAAGCAGAC-TGAGGGAT-AGGAAAGTCTCTAAGGTCAAAGCCG
1 AGTCTCTAGGGTCAAAGCCGACAGGCAGACTTTA--GATGAGG-TAGTCTCCAAGGTCAAAGCCG
* ** * *
88314 ATAGGTTGACTTTA-GATAAGG-C
63 ACAGGCAGAC-TGAGGAT-AGGAA
* * * * *
88336 AGTCTCTAAGTTCAAAGCCGACAGGTAGACTTTAGATGGGGTAGTCTCCAAGGTCAAAGCCGACC
1 AGTCTCTAGGGTCAAAGCCGACAGGCAGACTTTAGATGAGGTAGTCTCCAAGGTCAAAGCCGACA
* *
88401 TGCAGACTGAGGGTAGGAA
66 GGCAGACTGAGGATAGGAA
* * * * * * ** *
88420 AGTCTGTAGGGTCAAAGCCAACAGGTAGACTTTAGATGAGGCAGTCTCTAGGGTCAAAGTTGAGA
1 AGTCTCTAGGGTCAAAGCCGACAGGCAGACTTTAGATGAGGTAGTCTCCAAGGTCAAAGCCGACA
* *
88485 GGCAGATTGAGGGTAGGAA
66 GGCAGACTGAGGATAGGAA
* * ** * **
88504 AGTCT-TCAAGGTCAAAGCCAACAGGCAGACTTTAGATGAGACAGCCTCCAAGGTCAAAGTTGAC
1 AGTCTCT-AGGGTCAAAGCCGACAGGCAGACTTTAGATGAGGTAGTCTCCAAGGTCAAAGCCGAC
*
88568 AGGTAGACTGAAGG-TAGGAA
65 AGGCAGACTG-AGGATAGGAA
* * * *
88588 AGTTTCCAGGGTCAAAGCTGACAAGCAG
1 AGTCTCTAGGGTCAAAGCCGACAGGCAG
88616 GGTCAAAGCC
Statistics
Matches: 911, Mismatches: 182, Indels: 58
0.79 0.16 0.05
Matches are distributed among these distances:
83 27 0.03
84 739 0.81
85 131 0.14
86 14 0.02
ACGTcount: A:0.33, C:0.18, G:0.30, T:0.19
Consensus pattern (84 bp):
AGTCTCTAGGGTCAAAGCCGACAGGCAGACTTTAGATGAGGTAGTCTCCAAGGTCAAAGCCGACA
GGCAGACTGAGGATAGGAA
Found at i:87547 original size:126 final size:125
Alignment explanation
Indices: 87285--88576 Score: 790
Period size: 126 Copynumber: 10.2 Consensus size: 125
87275 AAGAAAATAT
* * * ** * *
87285 TCTCCAGGCTCAAAGCTGACAGACAGACTTTAGATAAGACT-GTCTCCAGGGTCAAAGCCGACAG
1 TCTCTAGGGTCAAAGCCGACAGGTAGACTTTAGATAAG-GTAGTCTCCAAGGTCAAAGCCGACAG
* ** ** * * *
87349 GTAGACTGAGGGATAGGAAAGTCTTTAGGGTCAAAGCCGACAGATAGACTTTAGATAAGG-CAG
65 GCAGACTGA--GATAGGAAAGTCTCCAGGGTCAAAGCCGACAGGCAGAC-TGAGATGAGGAAAG
* ** *
87412 TCTCTAGGGTCAAAGCTGACAGGTAGACTTTAGATGGGGTAGTCTCCAAGGTCAAAGCCGACAGA
1 TCTCTAGGGTCAAAGCCGACAGGTAGACTTTAGATAAGGTAGTCTCCAAGGTCAAAGCCGACAGG
* * * *
87477 TAGACTGAGGATAAGAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTTTAGATGAGG-CAG
66 CAGACTGA-GATAGGAAAGTCTCCAGGGTCAAAGCCGACAGGCAGAC-TGAGATGAGGAAAG
* * * * * * *
87538 TCTCCAGGGTCAAAGTCGATAGGTAGA-TTGAGGGT-AGGAAAGTCTCC-AGAGTCAAAGTCGAC
1 TCTCTAGGGTCAAAGCCGACAGGTAGACTTTA-GATAAGG-TAGTCTCCAAG-GTCAAAGCCGAC
* * * * * * * *
87600 AGGCAGACTTTAAATAAGG-CAGTCTCTAGGGCCAAAGTCGATAGGCAGACTAAGGGAT-AGGAA
63 AGGCAGAC-TGAGAT-AGGAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACT--GAGATGAGGAA
87663 AG
124 AG
* * * * * * *
87665 T-TCTAGGGTCAAAGCCAACAGGCAAACTTTAGATAAGGTAGTCTCTAGGGTCAAAGCTGACAAG
1 TCTCTAGGGTCAAAGCCGACAGGTAGACTTTAGATAAGGTAGTCTCCAAGGTCAAAGCCGACAGG
* * ** * * ** *
87729 TAGACTTTAGATAGGGTAGTCTCTAAGGTCAAAGTAGACAGGCAGACTGAG-GGTAGGAAAG
66 CAGAC-TGAGATAGGAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAGATG-AGGAAAG
* * * * * *
87790 TCT-TCAGGGTCAAAGCCGACAGATAGACTTTAAATGAGGTAGTCTTCAGGGTCAAAGCTGACAG
1 TCTCT-AGGGTCAAAGCCGACAGGTAGACTTTAGATAAGGTAGTCTCCAAGGTCAAAGCCGACAG
* * * * * *
87854 ACAGACTGAGAGTGGGAAAATCTCTAGGGTCAAAACCGACAGGCAGACTAAGGGAT-A-GAATAG
65 GCAGACTGAGA-TAGGAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACT--GAGATGAGGAA-AG
* * ** ** * * **
87917 TCTCCAAGGTCAAAGCCGACAGACAGACTTTAGATGGGGTAGTTTCCGAGGTCAAAGTTGACAGG
1 TCTCTAGGGTCAAAGCCGACAGGTAGACTTTAGATAAGGTAGTCTCCAAGGTCAAAGCCGACAGG
* * * * * * * * *
87982 CACACTAAGGGTAAGAAAGTCTCCAGGGTCAAAGCCGATAGACAAACTTTAGATGAGG-TAG
66 CAGACTGA-GATAGGAAAGTCTCCAGGGTCAAAGCCGACAGGCAGAC-TGAGATGAGGAAAG
* * * * * * * * * * *
88043 TCTCTAAGGTCAAAGCTGATAGGCAGAC-TAAGGGT-AGGAAAGTCTCGAAGGTTAAAGCCAATA
1 TCTCTAGGGTCAAAGCCGACAGGTAGACTTTA-GATAAGG-TAGTCTCCAAGGTCAAAGCCGACA
* * * * * *
88106 GGCAGACTTTAGATGAGG-TAGTCTCCAGGGTTAAAGTCGACAGGCAGACCGAG-GGTAGGAAAG
64 GGCAGAC-TGAGAT-AGGAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAGATG-AGGAAAG
* * * *
88169 TCTCTAGGGTTAAAGCCGACAGGCAGACTTTAGATAAGGCAGCCTCCAAGGTCAAAGCCGACAGG
1 TCTCTAGGGTCAAAGCCGACAGGTAGACTTTAGATAAGGTAGTCTCCAAGGTCAAAGCCGACAGG
* * * * * * *
88234 CAGATTAAGGGTAGGAAAGCCTCTAGGGTCAAAACCGACAAGCAGACTGAGGGAT-AGGAAAG
66 CAGACTGA-GATAGGAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTGA--GATGAGGAAAG
* * * * * *
88296 TCTCTAAGGTCAAAGCCGATAGGTTGACTTTAGATAAGGCAGTCTCTAAGTTCAAAGCCGACAGG
1 TCTCTAGGGTCAAAGCCGACAGGTAGACTTTAGATAAGGTAGTCTCCAAGGTCAAAGCCGACAGG
* * * ** * ** *
88361 TAGACTTTAGATGGGGTAGTCTCCAAGGTCAAAGCCGACCTGCAGACTGAG-GGTAGGAAAG
66 CAGAC-TGAGATAGGAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAGATG-AGGAAAG
* * * * * * ** *
88422 TCTGTAGGGTCAAAGCCAACAGGTAGACTTTAGATGAGGCAGTCTCTAGGGTCAAAGTTGAGAGG
1 TCTCTAGGGTCAAAGCCGACAGGTAGACTTTAGATAAGGTAGTCTCCAAGGTCAAAGCCGACAGG
* * * * * * *
88487 CAGATTGAGGGTAGGAAAGTCTTCAAGGTCAAAGCCAACAGGCAGACTTTAGATGA-GACAG
66 CAGACTGA-GATAGGAAAGTCTCCAGGGTCAAAGCCGACAGGCAGAC-TGAGATGAGGAAAG
* * * **
88548 CCTCCAAGGTCAAAGTTGACAGGTAGACT
1 TCTCTAGGGTCAAAGCCGACAGGTAGACT
88577 GAAGGTAGGA
Statistics
Matches: 904, Mismatches: 215, Indels: 93
0.75 0.18 0.08
Matches are distributed among these distances:
124 3 0.00
125 41 0.05
126 570 0.63
127 281 0.31
128 9 0.01
ACGTcount: A:0.33, C:0.18, G:0.29, T:0.20
Consensus pattern (125 bp):
TCTCTAGGGTCAAAGCCGACAGGTAGACTTTAGATAAGGTAGTCTCCAAGGTCAAAGCCGACAGG
CAGACTGAGATAGGAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAGATGAGGAAAG
Found at i:88586 original size:421 final size:420
Alignment explanation
Indices: 87326--88615 Score: 1274
Period size: 421 Copynumber: 3.1 Consensus size: 420
87316 AGATAAGACT
* * * * ** *
87326 GTCTCCAGGGTCAAAGCCGACAGGTAGACTGAGGGATAGGAAAGTCTTTAGGGTCAAAGCCGACA
1 GTCTCTAGGGTCAAAGCAGACAGGCAGACTGA-GGATAGGAAAGCCTCCAAGGTCAAAGCCGACA
* * ** * * * * ** * * **
87391 GATAGACTTTAGATAAGGCAGTC-TCTAGGGTCAAAGCTGACAGGTAGACTTTAGA-TGGGGTAG
65 GACAGAC-TTAAAGGAGGAAGCCTTC-AGGGTCAAAACCGACAGACAGAC-TGAGAGTAGGAAAG
* * * *
87454 TCTCCAAGGTCAAAGCCGACAGATAGACTGAGGATAAGAAAGTCTCCAGGGTCAAAGCCGACAGG
127 TCTCTAAGGTCAAAGCCGACAGGTAGACTAAGGATAAGAAAGTCTCCAAGGTCAAAGCCGACAGG
* * * * * *
87519 CAGACTTTAGATGAGGCAGTCTCCAGGGTCAAAGTCGATAGGTAGATTGAGGGTAGGAAAGTCTC
192 CAGACTTTAGATGGGGTAGTCTCCAAGGTCAAAGTCGACAGGCAGACTGAGGGTAGGAAAGTCTC
* * * * * *
87584 CAGAGTCAAAGTCGACAGGCAGACTTTAAATAAGGCAGTCTCTAGGGCCAAAGTCGATAGGCAGA
257 CAGGGTCAAAGCCGACAGGCAGACTTTAGATGAGGCAGTCTCTAGGGTCAAAGTTGATAGGCAGA
* * * * *
87649 CTAAGGGATAGGAAAG--TTCTAGGGTCAAAGCCAACAGGCAAACTTTAGATAAGGTAGTCTCTA
322 CTAAGGG-TAGGAAAGTCTTCGAAGGTCAAAGCCAACAGGCAGACTTTAGATGAGGTAGTCTCCA
* * ** * **
87712 GGGTCAAAGCTGACAAGTAGACTTTAGATAGGGTA
386 GGGTCAAAGTTGACAGGTAGACTGAAGGTAGGAAA
* * * * * *
87747 GTCTCTAAGGTCAAAGTAGACAGGCAGACTGAGGGTAGGAAAGTCTTCAGGGTCAAAGCCGACAG
1 GTCTCTAGGGTCAAAGCAGACAGGCAGACTGAGGATAGGAAAGCCTCCAAGGTCAAAGCCGACAG
* * * * * * * *
87812 ATAGACTTTAAATGAGGTAGTCTTCAGGGTCAAAGCTGACAGACAGACTGAGAGTGGGAAAATCT
66 ACAGAC-TTAAAGGAGGAAGCCTTCAGGGTCAAAACCGACAGACAGACTGAGAGTAGGAAAGTCT
* * * *
87877 CTAGGGTCAAAACCGACAGGCAGACTAAGGGAT-AGAATAGTCTCCAAGGTCAAAGCCGACAGAC
130 CTAAGGTCAAAGCCGACAGGTAGACTAA-GGATAAGAA-AGTCTCCAAGGTCAAAGCCGACAGGC
* * * * * *
87941 AGACTTTAGATGGGGTAGTTTCCGAGGTCAAAGTTGACAGGCACACTAAGGGTAAGAAAGTCTCC
193 AGACTTTAGATGGGGTAGTCTCCAAGGTCAAAGTCGACAGGCAGACTGAGGGTAGGAAAGTCTCC
* * * * * *
88006 AGGGTCAAAGCCGATAGACAAACTTTAGATGAGGTAGTCTCTAAGGTCAAAGCTGATAGGCAGAC
258 AGGGTCAAAGCCGACAGGCAGACTTTAGATGAGGCAGTCTCTAGGGTCAAAGTTGATAGGCAGAC
* *
88071 TAAGGGTAGGAAAGTC-TCGAAGGTTAAAGCCAATAGGCAGACTTTAGATGAGGTAGTCTCCAGG
323 TAAGGGTAGGAAAGTCTTCGAAGGTCAAAGCCAACAGGCAGACTTTAGATGAGGTAGTCTCCAGG
* * * * *
88135 GTTAAAGTCGACAGGCAGACCGAGGGTAGGAAA
388 GTCAAAGTTGACAGGTAGACTGAAGGTAGGAAA
* * * *
88168 GTCTCTAGGGTTAAAGCCGACAGGCAGACTTTA-GATAAGG-CAGCCTCCAAGGTCAAAGCCGAC
1 GTCTCTAGGGTCAAAGCAGACAGGCAGAC-TGAGGAT-AGGAAAGCCTCCAAGGTCAAAGCCGAC
* * *
88231 AGGCAGA-TTAAGGGTAGGAAAGCC-TCTAGGGTCAAAACCGACA-AGCAGACTGAGGGATAGGA
64 AGACAGACTTAAAGG-AGG-AAGCCTTC-AGGGTCAAAACCGACAGA-CAGACTGAGAG-TAGGA
* * * ** * *
88293 AAGTCTCTAAGGTCAAAGCCGATAGGTTGACTTTA-GATAAGGCAGTCTCTAAGTTCAAAGCCGA
124 AAGTCTCTAAGGTCAAAGCCGACAGGTAGAC-TAAGGATAAGAAAGTCTCCAAGGTCAAAGCCGA
* * **
88357 CAGGTAGACTTTAGATGGGGTAGTCTCCAAGGTCAAAGCCGACCTGCAGACTGAGGGTAGGAAAG
188 CAGGCAGACTTTAGATGGGGTAGTCTCCAAGGTCAAAGTCGACAGGCAGACTGAGGGTAGGAAAG
** * * *
88422 TCTGTAGGGTCAAAGCCAACAGGTAGACTTTAGATGAGGCAGTCTCTAGGGTCAAAGTTGAGAGG
253 TCTCCAGGGTCAAAGCCGACAGGCAGACTTTAGATGAGGCAGTCTCTAGGGTCAAAGTTGATAGG
* * ** *
88487 CAGATTGAGGGTAGGAAAGTCTTC-AAGGTCAAAGCCAACAGGCAGACTTTAGATGAGACAGCCT
318 CAGACTAAGGGTAGGAAAGTCTTCGAAGGTCAAAGCCAACAGGCAGACTTTAGATGAGGTAGTCT
*
88551 CCAAGGTCAAAGTTGACAGGTAGACTGAAGGTAGGAAA
383 CCAGGGTCAAAGTTGACAGGTAGACTGAAGGTAGGAAA
* * * *
88589 GTTTCCAGGGTCAAAGCTGACAAGCAG
1 GTCTCTAGGGTCAAAGCAGACAGGCAG
88616 GGTCAAAGCC
Statistics
Matches: 715, Mismatches: 138, Indels: 32
0.81 0.16 0.04
Matches are distributed among these distances:
419 9 0.01
420 119 0.17
421 547 0.77
422 38 0.05
423 2 0.00
ACGTcount: A:0.33, C:0.18, G:0.30, T:0.19
Consensus pattern (420 bp):
GTCTCTAGGGTCAAAGCAGACAGGCAGACTGAGGATAGGAAAGCCTCCAAGGTCAAAGCCGACAG
ACAGACTTAAAGGAGGAAGCCTTCAGGGTCAAAACCGACAGACAGACTGAGAGTAGGAAAGTCTC
TAAGGTCAAAGCCGACAGGTAGACTAAGGATAAGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGA
CTTTAGATGGGGTAGTCTCCAAGGTCAAAGTCGACAGGCAGACTGAGGGTAGGAAAGTCTCCAGG
GTCAAAGCCGACAGGCAGACTTTAGATGAGGCAGTCTCTAGGGTCAAAGTTGATAGGCAGACTAA
GGGTAGGAAAGTCTTCGAAGGTCAAAGCCAACAGGCAGACTTTAGATGAGGTAGTCTCCAGGGTC
AAAGTTGACAGGTAGACTGAAGGTAGGAAA
Found at i:88618 original size:19 final size:19
Alignment explanation
Indices: 88594--88634 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
88584 GGAAAGTTTC
*
88594 CAGGGTCAAAGCTGACAAG
1 CAGGGTCAAAGCCGACAAG
*
88613 CAGGGTCAAAGCCGACAGG
1 CAGGGTCAAAGCCGACAAG
88632 CAG
1 CAG
88635 ACTGAGAGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.34, C:0.24, G:0.34, T:0.07
Consensus pattern (19 bp):
CAGGGTCAAAGCCGACAAG
Found at i:88672 original size:62 final size:61
Alignment explanation
Indices: 88555--88677 Score: 165
Period size: 62 Copynumber: 2.0 Consensus size: 61
88545 CAGCCTCCAA
** * * * * *
88555 GGTCAAAGTTGACAGGTAGACTGAAGGTAGGAAAGTTTCCAGGGTCAAAGCTGACAAGCAG
1 GGTCAAAGCCGACAGGCAGACTGAAGATAGGAAAATCTCCAAGGTCAAAGCTGACAAGCAG
*
88616 GGTCAAAGCCGACAGGCAGACTGAGAGATAGGAAAATCTCCAAGGTCAAAGCTGACAGGCAG
1 GGTCAAAGCCGACAGGCAGACTGA-AGATAGGAAAATCTCCAAGGTCAAAGCTGACAAGCAG
88678 ACTTTAGATA
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
61 21 0.40
62 32 0.60
ACGTcount: A:0.36, C:0.18, G:0.32, T:0.15
Consensus pattern (61 bp):
GGTCAAAGCCGACAGGCAGACTGAAGATAGGAAAATCTCCAAGGTCAAAGCTGACAAGCAG
Found at i:88700 original size:42 final size:41
Alignment explanation
Indices: 88616--88767 Score: 146
Period size: 42 Copynumber: 3.6 Consensus size: 41
88606 TGACAAGCAG
**
88616 GGTCAAAGCCGACAGGCAGACTGAGAGATAGGAAAA-TCTCCAA
1 GGTCAAAGCCGACAGGCAGACT-TTAGATA--AAAAGTCTCCAA
*
88659 GGTCAAAGCTGACAGGCAGACTTTAGATAAAACAGTCTCCAA
1 GGTCAAAGCCGACAGGCAGACTTTAGATAAAA-AGTCTCCAA
* * * * * *
88701 GGTCAAAACCGATAGGTAGAC-TAAGGGTAAAAAAGTCTCCAG
1 GGTCAAAGCCGACAGGCAGACTTTA-GAT-AAAAAGTCTCCAA
*
88743 GGTCAAAGTCGACAGGCAGACTTTA
1 GGTCAAAGCCGACAGGCAGACTTTA
88768 AAATAGGAAA
Statistics
Matches: 89, Mismatches: 15, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
40 3 0.03
41 3 0.03
42 56 0.63
43 27 0.30
ACGTcount: A:0.38, C:0.20, G:0.26, T:0.16
Consensus pattern (41 bp):
GGTCAAAGCCGACAGGCAGACTTTAGATAAAAAGTCTCCAA
Found at i:93785 original size:52 final size:52
Alignment explanation
Indices: 93637--93765 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
93627 CGAAATATGA
*
93637 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATATATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
*
93689 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
93741 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
93766 AAGATCAGTG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
Found at i:93792 original size:13 final size:13
Alignment explanation
Indices: 93774--93798 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
93764 CAAAGATCAG
93774 TGTATCGATACAA
1 TGTATCGATACAA
93787 TGTATCGATACA
1 TGTATCGATACA
93799 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:93877 original size:13 final size:13
Alignment explanation
Indices: 93859--93886 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
93849 TACAAAACTT
93859 ATGTATCGATACA
1 ATGTATCGATACA
93872 ATGTATCGATACA
1 ATGTATCGATACA
93885 AT
1 AT
93887 ATTTTATGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:93899 original size:33 final size:32
Alignment explanation
Indices: 93843--93905 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 32
93833 GCTTAAATTA
93843 TATCGATACAAAACTTATGTATCGATACAATG
1 TATCGATACAAAACTTATGTATCGATACAATG
**
93875 TATCGATACAATATTTTATGTATCGATACAA
1 TATCGATACAA-AACTTATGTATCGATACAA
93906 ATCGTTGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 11 0.39
33 17 0.61
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.35
Consensus pattern (32 bp):
TATCGATACAAAACTTATGTATCGATACAATG
Found at i:94915 original size:43 final size:43
Alignment explanation
Indices: 94854--95262 Score: 431
Period size: 43 Copynumber: 9.1 Consensus size: 43
94844 TAAAGATGAC
* * *
94854 AAAGGCGCCAATATGCTGATTCAAGGCTAGCGATATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTT
* * *
94897 AAAGGTGTCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTT
* *
94940 AAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 -----A-AAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTT
* * *
94989 AAAAGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGAC-T-----T
*
95038 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTT
* *
95081 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTT
* *
95124 AAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
1 -AA-A-G--G-TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTT
** * * *
95173 GGAGGTGCCAATGTGCTAATTCAAGGCTAGCGATATTGGGCTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTT
** * *
95216 GGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTT
95259 AAAG
1 AAAG
95263 ATGAAGATGC
Statistics
Matches: 311, Mismatches: 37, Indels: 36
0.81 0.10 0.09
Matches are distributed among these distances:
43 190 0.61
44 5 0.02
45 1 0.00
46 2 0.01
47 1 0.00
48 3 0.01
49 109 0.35
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (43 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTT
Found at i:94989 original size:92 final size:92
Alignment explanation
Indices: 94808--95262 Score: 618
Period size: 92 Copynumber: 5.0 Consensus size: 92
94798 TGACAAAGAC
* * * *
94808 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGA
1 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGA--A-GAAGGTGCCAATATGCTGA
*
94873 TTCAAGGCTAGCGATATTGGACTTAAAGGT
63 TTCAAGGCCAGCGATATTGGACTTAAAGGT
* *
94903 GTCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGAAGAAGGTGCCAATATGCTGATTC
1 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTC
* *
94968 AAGGCCAGCTATATTGGACTTAAAAGT
66 AAGGCCAGCGATATTGGACTTAAAGGT
*
94995 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATA-AAGGTGCCAATATGCTGATT
1 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGA-AGAAGGTGCCAATATGCTGATT
95059 CAAGGCCAGCGATATTGGACTTAAAGGT
65 CAAGGCCAGCGATATTGGACTTAAAGGT
* * *
95087 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTC
1 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTC
* **
95152 AAGGCCAGCGATATTGGGCTTGGAGGT
66 AAGGCCAGCGATATTGGACTTAAAGGT
* * * * *
95179 GCCAATGTGCTAATTCAAGGCTAGCGATATTGGGCTT---G--G-AGGTGCCAATGTGCTGATTC
1 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTC
* *
95238 AAGGCCAGCTACATTGGACTTAAAG
66 AAGGCCAGCGATATTGGACTTAAAG
95263 ATGAAGATGC
Statistics
Matches: 327, Mismatches: 31, Indels: 13
0.88 0.08 0.04
Matches are distributed among these distances:
86 38 0.12
87 1 0.00
89 1 0.00
92 247 0.76
93 2 0.01
95 38 0.12
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (92 bp):
GCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTC
AAGGCCAGCGATATTGGACTTAAAGGT
Found at i:95295 original size:135 final size:135
Alignment explanation
Indices: 94808--95313 Score: 585
Period size: 135 Copynumber: 3.7 Consensus size: 135
94798 TGACAAAGAC
* * **
94808 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGA
1 GCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG---AAGATGCCAATATGCTGA
* * * *
94873 TTCAAGGCTAGCGATATTGGACTTAAAGGTGTCAATGTGCTGATTCAAGGCCAGCGACATTGGGC
63 TTCAAGGCCAGCGATATTGGACTTGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGGC
94938 TTAAAGAAGAAGGT
128 TT---G--G-AGGT
* *
94952 GCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT--A-A--AAG-TGCCAATGTGCTGATTC
1 GCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTC
* * *
95011 AAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTG
66 AAGGCCAGCGATATTGGACTT---G---AAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTG
* **
95076 GACTTAAAGGT
125 GGCTTGGAGGT
*
95087 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTC
1 GCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTC
* * * *
95152 AAGGCCAGCGATATTGGGCTTGGAGGTGCCAATGTGCTAATTCAAGGCTAGCGATATTGGGCTTG
66 AAGGCCAGCGATATTGGACTTGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTTG
95217 GAGGT
131 GAGGT
*
95222 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATT-
1 GCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTC
* * *
95286 TAGGACCAGCTATATTGGGCTTAGAAGG
66 AAGG-CCAGCGATATTGGACTT-GAAGG
95314 GTTGCCACCG
Statistics
Matches: 319, Mismatches: 29, Indels: 36
0.83 0.08 0.09
Matches are distributed among these distances:
134 3 0.01
135 193 0.61
136 7 0.02
137 1 0.00
138 2 0.01
140 3 0.01
141 73 0.23
142 1 0.00
144 36 0.11
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (135 bp):
GCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTC
AAGGCCAGCGATATTGGACTTGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTTG
GAGGT
Found at i:95418 original size:32 final size:32
Alignment explanation
Indices: 95301--95467 Score: 243
Period size: 32 Copynumber: 5.3 Consensus size: 32
95291 CCAGCTATAT
95301 TGGGC-TTA-GAAGGGTTGCCACCGACTTGTG
1 TGGGCTTTAGGAAGGGTTGCCACCGACTTGTG
* *
95331 TGGGCTTTAGAGAATGGTTGCCACCAACTTGTG
1 TGGGCTTTAG-GAAGGGTTGCCACCGACTTGTG
* *
95364 TGGGCTTTAAGG--GGGTTACCACCAACTTGTG
1 TGGGCTTT-AGGAAGGGTTGCCACCGACTTGTG
95395 TGGGCTTTAGGAAGGGTTGCCACCGACTTGTG
1 TGGGCTTTAGGAAGGGTTGCCACCGACTTGTG
*
95427 TGGGCTTTGGGAAGGGTTGCCACCGACTTGTG
1 TGGGCTTTAGGAAGGGTTGCCACCGACTTGTG
95459 TGGGCTTTA
1 TGGGCTTTA
95468 AAAAGGGTGA
Statistics
Matches: 123, Mismatches: 8, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
30 8 0.07
31 28 0.23
32 56 0.46
33 29 0.24
34 2 0.02
ACGTcount: A:0.17, C:0.19, G:0.35, T:0.29
Consensus pattern (32 bp):
TGGGCTTTAGGAAGGGTTGCCACCGACTTGTG
Found at i:95520 original size:33 final size:36
Alignment explanation
Indices: 95457--95576 Score: 140
Period size: 36 Copynumber: 3.4 Consensus size: 36
95447 CACCGACTTG
* **
95457 TGTGGGCTTTAAAAAGGGTGAAAGA-TGCCACGAAGT
1 TGTGGACTTT-AAAAGGGAAAAAGAGTGCCACGAAGT
*
95493 TGTGGAC-TTAAAA-GGAACAAG-GTGCCACGAAGT
1 TGTGGACTTTAAAAGGGAAAAAGAGTGCCACGAAGT
*
95526 TGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGACTTTAAAAGGGAAAAAGAGTGCCACGAAGT
*
95562 TGTGGGCTTTGAAAA
1 TGTGGACTTT-AAAA
95577 AGATGCCACT
Statistics
Matches: 72, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
33 23 0.32
34 10 0.14
35 9 0.12
36 26 0.36
37 4 0.06
ACGTcount: A:0.34, C:0.12, G:0.33, T:0.22
Consensus pattern (36 bp):
TGTGGACTTTAAAAGGGAAAAAGAGTGCCACGAAGT
Found at i:95604 original size:30 final size:30
Alignment explanation
Indices: 95542--95600 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
95532 CTTTAAAAGG
*
95542 GAAAAAGAGTGCCACGGAGTTGTGGGCTTT
1 GAAAAAGAGTGCCACGGACTTGTGGGCTTT
*
95572 GAAAAAGA-TGCCACTGACTTGTGGGCTTT
1 GAAAAAGAGTGCCACGGACTTGTGGGCTTT
95601 TGAAGGGTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 19 0.70
30 8 0.30
ACGTcount: A:0.27, C:0.15, G:0.32, T:0.25
Consensus pattern (30 bp):
GAAAAAGAGTGCCACGGACTTGTGGGCTTT
Found at i:97044 original size:1 final size:1
Alignment explanation
Indices: 97038--97085 Score: 51
Period size: 1 Copynumber: 48.0 Consensus size: 1
97028 TCCGGATGCC
* * * * *
97038 TTTTTTTTTTGTTTTGTTTTGTTTTTTTTCTTTTTTTTCTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
97086 GTGGAGGACA
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:0.00, C:0.04, G:0.06, T:0.90
Consensus pattern (1 bp):
T
Found at i:97066 original size:9 final size:9
Alignment explanation
Indices: 97040--97084 Score: 63
Period size: 9 Copynumber: 4.9 Consensus size: 9
97030 CGGATGCCTT
*
97040 TTTTTTTTG
1 TTTTTTTTC
*
97049 TTTTGTTTTG
1 TTTT-TTTTC
97059 TTTTTTTTC
1 TTTTTTTTC
97068 TTTTTTTTC
1 TTTTTTTTC
97077 TTTTTTTT
1 TTTTTTTT
97085 TGTGGAGGAC
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
9 25 0.74
10 9 0.26
ACGTcount: A:0.00, C:0.04, G:0.07, T:0.89
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:110995 original size:52 final size:52
Alignment explanation
Indices: 110917--111045 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
110907 CGAAATATGA
* *
110917 AAATTTGCCTGCATGTATCGAAACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
*
110969 AAATTTGCCTACATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
*
111021 AAATTTGCCTGCATGTATCAATACA
1 AAATTTGCCTGCATGTATCGATACA
111046 AAGATCAGTG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
Found at i:111072 original size:13 final size:13
Alignment explanation
Indices: 111054--111078 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
111044 CAAAGATCAG
111054 TGTATCGATACAA
1 TGTATCGATACAA
111067 TGTATCGATACA
1 TGTATCGATACA
111079 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:111184 original size:33 final size:32
Alignment explanation
Indices: 111121--111185 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
111111 TAGCTTAAAT
111121 TGTATCGATACAAAACTTATGTATCAATACAA
1 TGTATCGATACAAAACTTATGTATCAATACAA
** *
111153 TGTATCGATACAATATTTTATGTATCGATACAA
1 TGTATCGATACAA-AACTTATGTATCAATACAA
111186 ATCGTTGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 13 0.45
33 16 0.55
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCAATACAA
Found at i:123326 original size:30 final size:30
Alignment explanation
Indices: 123291--123515 Score: 208
Period size: 30 Copynumber: 7.4 Consensus size: 30
123281 TTTTTTTCAT
123291 TGCTGTT-CGTGCTTGCC-TGCTTGTTGGAGC
1 TGCTGTTGC-TGC-TGCCGTGCTTGTTGGAGC
* * *
123321 AGCTGTTGCTGCTGCCGTGCTATTGTTTG-GT
1 TGCTGTTGCTGCTGCCGTGC--TTGTTGGAGC
* *
123352 TGCTGTT-CATGTTTGCC-TGCTTGTTAGAGC
1 TGCTGTTGC-TG-CTGCCGTGCTTGTTGGAGC
123382 TGCTGTTGCTGCTGCCGTGCTTGTTGGAGC
1 TGCTGTTGCTGCTGCCGTGCTTGTTGGAGC
** * *
123412 TATTGTTGTTGCTGTCGTGCTTGTTGGAGC
1 TGCTGTTGCTGCTGCCGTGCTTGTTGGAGC
* *
123442 TACATTTTGCTGCTGCCGTGCTTGTTGGAGC
1 TGC-TGTTGCTGCTGCCGTGCTTGTTGGAGC
* * *
123473 TGCTATTGTTGCTACCGTGCTTGTTGGAGC
1 TGCTGTTGCTGCTGCCGTGCTTGTTGGAGC
* *
123503 TGTTGTTGTTGCT
1 TGCTGTTGCTGCT
123516 ATCGTGGAAG
Statistics
Matches: 162, Mismatches: 23, Indels: 20
0.79 0.11 0.10
Matches are distributed among these distances:
29 14 0.09
30 98 0.60
31 40 0.25
32 10 0.06
ACGTcount: A:0.07, C:0.20, G:0.32, T:0.42
Consensus pattern (30 bp):
TGCTGTTGCTGCTGCCGTGCTTGTTGGAGC
Found at i:123452 original size:61 final size:60
Alignment explanation
Indices: 123369--123503 Score: 189
Period size: 61 Copynumber: 2.2 Consensus size: 60
123359 CATGTTTGCC
* * * * **
123369 TGCTTGTTAGAGCTGCTGTTGCTGCTGCCGTGCTTGTTGGAGCTATTGTTGTTGCTGTCG
1 TGCTTGTTGGAGCTACTGTTGCTGCTGCCGTGCTTGTTGGAGCTACTATTGTTGCTACCG
* *
123429 TGCTTGTTGGAGCTACATTTTGCTGCTGCCGTGCTTGTTGGAGCTGCTATTGTTGCTACCG
1 TGCTTGTTGGAGCTAC-TGTTGCTGCTGCCGTGCTTGTTGGAGCTACTATTGTTGCTACCG
123490 TGCTTGTTGGAGCT
1 TGCTTGTTGGAGCT
123504 GTTGTTGTTG
Statistics
Matches: 66, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
60 14 0.21
61 52 0.79
ACGTcount: A:0.08, C:0.19, G:0.32, T:0.41
Consensus pattern (60 bp):
TGCTTGTTGGAGCTACTGTTGCTGCTGCCGTGCTTGTTGGAGCTACTATTGTTGCTACCG
Found at i:123869 original size:16 final size:16
Alignment explanation
Indices: 123848--123880 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
123838 AGCACTTTAC
123848 GTGCTGCATGCTTCAT
1 GTGCTGCATGCTTCAT
*
123864 GTGCTGCATGTTTCAT
1 GTGCTGCATGCTTCAT
123880 G
1 G
123881 CGTTTCTCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.21, G:0.27, T:0.39
Consensus pattern (16 bp):
GTGCTGCATGCTTCAT
Found at i:124162 original size:19 final size:19
Alignment explanation
Indices: 124138--124175 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
124128 GTATGAATAC
124138 ATGAAATGAAAGCAATGCA
1 ATGAAATGAAAGCAATGCA
*
124157 ATGAAATGAATGCAATGCA
1 ATGAAATGAAAGCAATGCA
124176 TCAAATGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.50, C:0.11, G:0.21, T:0.18
Consensus pattern (19 bp):
ATGAAATGAAAGCAATGCA
Found at i:124417 original size:3 final size:3
Alignment explanation
Indices: 124411--124445 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
124401 TTTTTATTTT
*
124411 TTA TTA TTA TTA TTA TTA TTA TTT TTA CTTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA T
124446 AATATTTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:126454 original size:28 final size:28
Alignment explanation
Indices: 126397--126450 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 28
126387 TGATTAAGTT
*
126397 CAGATTTTGAGATATTACTTTTATTTTC
1 CAGATTTTGAGACATTACTTTTATTTTC
*
126425 CAGA-TTTGAGACATTACTTTTGTTTT
1 CAGATTTTGAGACATTACTTTTATTTT
126451 TCCATTAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 20 0.83
28 4 0.17
ACGTcount: A:0.24, C:0.11, G:0.13, T:0.52
Consensus pattern (28 bp):
CAGATTTTGAGACATTACTTTTATTTTC
Found at i:126608 original size:20 final size:22
Alignment explanation
Indices: 126569--126609 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
126559 TAAAAGCTTG
*
126569 AATTTTATATGATATTATAATA
1 AATTTTAGATGATATTATAATA
126591 AATTTTAGAT-AT-TTATAAT
1 AATTTTAGATGATATTATAAT
126610 CATTATTAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 2 0.11
22 9 0.50
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (22 bp):
AATTTTAGATGATATTATAATA
Found at i:134017 original size:20 final size:21
Alignment explanation
Indices: 133992--134042 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
133982 CGATACATTA
*
133992 TATCGATACATG-ACCA-AATG
1 TATCGATACATGCA-AAGAATG
*
134012 TATCGATACTTGCAAAGAATG
1 TATCGATACATGCAAAGAATG
134033 TATCGATACA
1 TATCGATACA
134043 GGTGATTGGC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 12 0.46
21 14 0.54
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (21 bp):
TATCGATACATGCAAAGAATG
Found at i:140240 original size:13 final size:13
Alignment explanation
Indices: 140222--140259 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
140212 CAGCATTCTC
*
140222 TGTATCGATACAT
1 TGTATCGATACAG
140235 TGTATCGATACAG
1 TGTATCGATACAG
140248 TGTATCGATACA
1 TGTATCGATACA
140260 AAGGGTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:142755 original size:13 final size:13
Alignment explanation
Indices: 142737--142793 Score: 63
Period size: 13 Copynumber: 4.8 Consensus size: 13
142727 TAATGCACAA
142737 TATCGATACATTG
1 TATCGATACATTG
142750 TATCGATACA-TG
1 TATCGATACATTG
*
142762 -A-CCA-A-A-TG
1 TATCGATACATTG
142770 TATCGATACATTG
1 TATCGATACATTG
142783 TATCGATACAT
1 TATCGATACAT
142794 GACCAAATGT
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
8 3 0.08
9 2 0.05
10 4 0.11
11 2 0.05
12 3 0.08
13 23 0.62
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (13 bp):
TATCGATACATTG
Found at i:142757 original size:33 final size:32
Alignment explanation
Indices: 142715--142811 Score: 124
Period size: 33 Copynumber: 2.9 Consensus size: 32
142705 CACCTTCAGA
*
142715 TGTATCGATACATAATGCACAA-TATCGATACAT
1 TGTATCGATACATAA-CCA-AAGTATCGATACAT
*
142748 TGTATCGATACATGACCAAATGTATCGATACAT
1 TGTATCGATACATAACCAAA-GTATCGATACAT
*
142781 TGTATCGATACATGACCAAATGTATCGATAC
1 TGTATCGATACATAACCAAA-GTATCGATAC
142812 TTGCAAAGAA
Statistics
Matches: 60, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
31 2 0.03
32 2 0.03
33 56 0.93
ACGTcount: A:0.37, C:0.19, G:0.14, T:0.30
Consensus pattern (32 bp):
TGTATCGATACATAACCAAAGTATCGATACAT
Found at i:142773 original size:20 final size:20
Alignment explanation
Indices: 142748--142811 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
142738 ATCGATACAT
142748 TGTATCGATACATGACCAAA
1 TGTATCGATACATGACCAAA
142768 TGTATCGATACAT-------
1 TGTATCGATACATGACCAAA
142781 TGTATCGATACATGACCAAA
1 TGTATCGATACATGACCAAA
142801 TGTATCGATAC
1 TGTATCGATAC
142812 TTGCAAAGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 13 0.35
20 24 0.65
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.30
Consensus pattern (20 bp):
TGTATCGATACATGACCAAA
Found at i:142913 original size:13 final size:13
Alignment explanation
Indices: 142895--142943 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
142885 CAATTTGGGA
142895 TGTATCGATACAT
1 TGTATCGATACAT
142908 TGTATCGATACA-
1 TGTATCGATACAT
*
142920 TG-A-CCA-A-AT
1 TGTATCGATACAT
142929 TGTATCGATACAT
1 TGTATCGATACAT
142942 TG
1 TG
142944 GCTTGTAACG
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
8 1 0.03
9 3 0.10
10 3 0.10
11 3 0.10
12 3 0.10
13 16 0.55
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:145900 original size:19 final size:19
Alignment explanation
Indices: 145876--145915 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
145866 TTATACTTAA
145876 TACTTTTTGTGTTATAATT
1 TACTTTTTGTGTTATAATT
145895 TACTTTTTGTGTTATAATT
1 TACTTTTTGTGTTATAATT
145914 TA
1 TA
145916 AATGATATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.23, C:0.05, G:0.10, T:0.62
Consensus pattern (19 bp):
TACTTTTTGTGTTATAATT
Found at i:148844 original size:155 final size:155
Alignment explanation
Indices: 148496--148862 Score: 359
Period size: 155 Copynumber: 2.4 Consensus size: 155
148486 CTTCCCATAT
*
148496 ACGATCATTTTTAAGTCTTTTAGGGTTACCAAGATACTTTCATGTCGAAGGTATATTCAAAGGGG
1 ACGATCATTTTTAAGTCTTTTAGGGTTACCAGGATACTTTCATGTCGAAGGTATATT-AAAGGGG
* * **
148561 CATTTTCATACTTTGACCATAACTAAGTCCTAGGCTGTCACCAAGATGTTTTTATACCAAAGGTA
65 CATTTTCATAATTTGACCATAACTAAGTCCTAGACTGTCACCAAGATACTTTTATACCAAA-GTA
* *
148626 TGCATTTAGGATAGGTTCGTCTCATTT
129 TGCATTTAGGATAGGTTCATCTCATTA
* * * ** ***
148653 ATGACCCTTTTTAAGTCCCTTAGGGTTAATGGGATACTTTCATGTCGAAGGTACCTA-T-AA-GG
1 ACGATCATTTTTAAGTCTTTTAGGGTTACCAGGATACTTTCATGTCGAAGGTA--TATTAAAGGG
* * * * *** *
148715 GTATTTTCATAATTT-TCGGATAACTGAA-TCCTAGATTGTCACTGGGATACTTTTATAGCAAA-
64 GCATTTTCATAATTTGAC-CATAACT-AAGTCCTAGACTGTCACCAAGATACTTTTATACCAAAG
* *
148777 TATGGGTATTTAGGATAGGTTTATCTCATTA
127 TAT--GCATTTAGGATAGGTTCATCTCATTA
* * * *
148808 ACGATCATTTTTAAGTCTTTTAAGGTTACCAGGATACTTTAATGTTGAAGATATA
1 ACGATCATTTTTAAGTCTTTTAGGGTTACCAGGATACTTTCATGTCGAAGGTATA
148863 CCCATAGGCG
Statistics
Matches: 167, Mismatches: 37, Indels: 16
0.76 0.17 0.07
Matches are distributed among these distances:
153 5 0.03
154 1 0.01
155 110 0.66
156 4 0.02
157 44 0.26
158 1 0.01
159 2 0.01
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.38
Consensus pattern (155 bp):
ACGATCATTTTTAAGTCTTTTAGGGTTACCAGGATACTTTCATGTCGAAGGTATATTAAAGGGGC
ATTTTCATAATTTGACCATAACTAAGTCCTAGACTGTCACCAAGATACTTTTATACCAAAGTATG
CATTTAGGATAGGTTCATCTCATTA
Found at i:150314 original size:16 final size:16
Alignment explanation
Indices: 150289--150321 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
150279 AAAAACTCTA
*
150289 TATTTTTCTTTTTTTT
1 TATTTGTCTTTTTTTT
150305 TATTTGTCTTTTTTTT
1 TATTTGTCTTTTTTTT
150321 T
1 T
150322 TGTTTCTTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.06, C:0.06, G:0.03, T:0.85
Consensus pattern (16 bp):
TATTTGTCTTTTTTTT
Found at i:154985 original size:2 final size:2
Alignment explanation
Indices: 154980--155015 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
154970 TTTATGGATG
154980 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
155016 ATGCACCATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:158870 original size:13 final size:13
Alignment explanation
Indices: 158852--158877 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
158842 CAAGTTTTTG
158852 TGTATCGATACAT
1 TGTATCGATACAT
158865 TGTATCGATACAT
1 TGTATCGATACAT
158878 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:158942 original size:21 final size:21
Alignment explanation
Indices: 158916--158991 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
158906 CTGCCAAGAA
158916 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTT
*****
158937 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTT
158957 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTT
158978 ATGTATCGATACAT
1 ATGTATCGATACAT
158992 TGCAACATGT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.43
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTT
Found at i:158962 original size:20 final size:20
Alignment explanation
Indices: 158937--159009 Score: 92
Period size: 20 Copynumber: 3.6 Consensus size: 20
158927 CATCTTTTTT
158937 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
*****
158957 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACAT-TGCAAC
158978 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
158998 ATGTATCGATAC
1 ATGTATCGATAC
159010 TTTGAATTGT
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
20 27 0.64
21 15 0.36
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:158973 original size:41 final size:41
Alignment explanation
Indices: 158916--159009 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
158906 CTGCCAAGAA
158916 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
158957 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
158998 ATGTATCGATAC
1 ATGTATCGATAC
159010 TTTGAATTGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
Found at i:161465 original size:13 final size:13
Alignment explanation
Indices: 161447--161485 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
161437 ATAATCACCC
*
161447 TGTATCGATACAG
1 TGTATCGATACAA
161460 TGTATCGATACAA
1 TGTATCGATACAA
161473 TGTATCGATACAA
1 TGTATCGATACAA
161486 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:161496 original size:20 final size:20
Alignment explanation
Indices: 161471--161549 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 20
161461 GTATCGATAC
161471 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
161491 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
*
161516 GATGTATCGATACACAA-AAA
1 AATGTATCGATACA-AAGAAA
*
161536 CATGTATCGATACA
1 AATGTATCGATACA
161550 TTTTGGACAT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
20 32 0.65
25 16 0.33
26 1 0.02
ACGTcount: A:0.46, C:0.15, G:0.14, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:163593 original size:15 final size:15
Alignment explanation
Indices: 163557--163594 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
163547 TACATCAATT
* *
163557 TCATTTGGAGCTTCT
1 TCATTTTGAGCTTCC
163572 TCATTTTGAGCTTCC
1 TCATTTTGAGCTTCC
163587 TCATTTTG
1 TCATTTTG
163595 GACATCTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.13, C:0.21, G:0.16, T:0.50
Consensus pattern (15 bp):
TCATTTTGAGCTTCC
Done.