Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold1128.1
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: 568441
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.31
Warning! 17575 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:1369 original size:3 final size:3
Alignment explanation
Indices: 1361--1385 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
1351 ACATTAAACC
1361 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
1386 ATTCAAGATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:3450 original size:20 final size:20
Alignment explanation
Indices: 3425--3474 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
3415 AGCCTCACAC
*
3425 GCCCATGTGCTTGGGGACAT
1 GCCCATGTCCTTGGGGACAT
3445 GCCCATGTCCTTGGGGACAT
1 GCCCATGTCCTTGGGGACAT
3465 GCCCATGTCC
1 GCCCATGTCC
3475 AACACCCGTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.14, C:0.32, G:0.30, T:0.24
Consensus pattern (20 bp):
GCCCATGTCCTTGGGGACAT
Found at i:7333 original size:26 final size:26
Alignment explanation
Indices: 7282--7333 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
7272 TTTGGAAATT
* * *
7282 AAATGTTATATTTATATGATGTTATG
1 AAATGTTAAATTTAAATGATGCTATG
7308 AAATGTTAGAATTTAAAT-ATGCTATG
1 AAATGTTA-AATTTAAATGATGCTATG
7334 GCCGAACATG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 15 0.68
27 7 0.32
ACGTcount: A:0.38, C:0.02, G:0.15, T:0.44
Consensus pattern (26 bp):
AAATGTTAAATTTAAATGATGCTATG
Found at i:11278 original size:69 final size:70
Alignment explanation
Indices: 11146--11278 Score: 214
Period size: 69 Copynumber: 1.9 Consensus size: 70
11136 TAGTTTATTA
* * * * *
11146 CTAATTAATTTGCTGCTGTAATGCTGTAAATTATTGGCTGTCCAAATTAGGACAAATTTATGGTA
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
11211 CTTAG
66 CTTAG
11216 CTAATTAATATGCTGCTGTAATACT-TAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGT
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGT
11279 TTTATGTGCT
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
69 35 0.60
70 23 0.40
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (70 bp):
CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
CTTAG
Found at i:13241 original size:98 final size:98
Alignment explanation
Indices: 13058--13289 Score: 389
Period size: 98 Copynumber: 2.4 Consensus size: 98
13048 ACAAGATAAA
*
13058 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AAATATGTATGAGATATGTATATGTGGT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAATATATATGAGATATGTATATGTGGT
13122 AAAGCCGAATGGCTAATGTGAAATATGTATG-G
66 AAAGCCGAATGGCTAATGTGAAATATGTATGAG
13154 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGATATGTATATGTGG
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAA-ATATATATGAGATATGTATATGTGG
*
13219 TAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
65 TAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
13253 G-TACGTATATGTGGTAAAGCCGAAGGGCTAGTGTGAA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
13290 GTATGTAGGA
Statistics
Matches: 128, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
96 36 0.28
97 2 0.02
98 88 0.69
99 2 0.02
ACGTcount: A:0.34, C:0.07, G:0.29, T:0.30
Consensus pattern (98 bp):
GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAATATATATGAGATATGTATATGTGGT
AAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:13302 original size:48 final size:48
Alignment explanation
Indices: 13057--13296 Score: 390
Period size: 48 Copynumber: 5.0 Consensus size: 48
13047 CACAAGATAA
13057 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
13105 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* *
13153 GGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATG
*
13203 AGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* * * * *
13251 AGGTACGTATATGTGGTAAAGCCGAAGGGCTAGTGTGAAGTATGTA
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
13297 GGAGGTGTGG
Statistics
Matches: 181, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
48 134 0.74
49 4 0.02
50 43 0.24
ACGTcount: A:0.34, C:0.07, G:0.29, T:0.30
Consensus pattern (48 bp):
AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
Found at i:13547 original size:37 final size:36
Alignment explanation
Indices: 13442--13551 Score: 157
Period size: 37 Copynumber: 3.0 Consensus size: 36
13432 TGGGAATACA
* *
13442 TTCCGGGTAAGACCCAATGACTACGTGTGGAAATATA
1 TTCCGGGTAAGACCCAATGACTACGTGTGGAGAT-TT
13479 TTCCGGGTAAGACCCAATGACTACGTGTGGAGATTT
1 TTCCGGGTAAGACCCAATGACTACGTGTGGAGATTT
* * *
13515 TGTCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 T-TCCGGGTAAGACCCAATGACTACGTGTGGAGATTT
13552 CATCTGAGCT
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
36 2 0.03
37 65 0.97
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.27
Consensus pattern (36 bp):
TTCCGGGTAAGACCCAATGACTACGTGTGGAGATTT
Found at i:22814 original size:47 final size:47
Alignment explanation
Indices: 22745--23207 Score: 863
Period size: 47 Copynumber: 9.9 Consensus size: 47
22735 TACTGACACA
22745 ATTGGCCATTCGACCTTATCACATATATACACTTTCACATTCATCAC
1 ATTGGCCATTCGACCTTATCACATATATACACTTTCACATTCATCAC
22792 ATTGGCCATTCGACCTTATCACATATATACACTTTCACATTCATCAC
1 ATTGGCCATTCGACCTTATCACATATATACACTTTCACATTCATCAC
22839 ATTGGCCATTCGACCTTATCACATATATACACTTTCACATTCATCAC
1 ATTGGCCATTCGACCTTATCACATATATACACTTTCACATTCATCAC
22886 ATTGGCCATTCGACCTTATCACATATATACACTTTCACATTCATCAC
1 ATTGGCCATTCGACCTTATCACATATATACACTTTCACATTCATCAC
22933 ATTGGCCATTCGACCTTATCACATATATACACTTTCACATTCATCAC
1 ATTGGCCATTCGACCTTATCACATATATACACTTTCACATTCATCAC
22980 ATTGGCCATTCGACCTTATCACATATATACACTTTCACATTCATCAC
1 ATTGGCCATTCGACCTTATCACATATATACACTTTCACATTCATCAC
23027 ATTGGCCATTCGACCTTATCACATATATACACTTTCACATTCATCAC
1 ATTGGCCATTCGACCTTATCACATATATACACTTTCACATTCATCAC
*
23074 ATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCAC
1 ATTGGCCATTCGACCTTATCACATATATACACTTTCACATTCATCAC
*
23121 ATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCAC
1 ATTGGCCATTCGACCTTATCACATATATACACTTTCACATTCATCAC
* * * * *
23168 ATCGGCCATTAGGCCTTATCACATATATATACATTCACAT
1 ATTGGCCATTCGACCTTATCACATATATACACTTTCACAT
23208 CACAATTATC
Statistics
Matches: 411, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 411 1.00
ACGTcount: A:0.30, C:0.29, G:0.07, T:0.34
Consensus pattern (47 bp):
ATTGGCCATTCGACCTTATCACATATATACACTTTCACATTCATCAC
Found at i:31531 original size:85 final size:85
Alignment explanation
Indices: 31402--31580 Score: 358
Period size: 85 Copynumber: 2.1 Consensus size: 85
31392 TATTTTATTG
31402 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
31467 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
31487 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
31552 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
31572 CCCATGCTC
1 CCCATGCTC
31581 ATGGCCGGCC
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 94 1.00
ACGTcount: A:0.26, C:0.27, G:0.08, T:0.38
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:39816 original size:26 final size:26
Alignment explanation
Indices: 39765--39816 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
39755 TTTGGAAATT
* * *
39765 AAATGTTATATTTATATACTGTTATG
1 AAATGTTAAATTTAAATACTGCTATG
39791 AAATGTTAGAATTTAAATA-TGCTATG
1 AAATGTTA-AATTTAAATACTGCTATG
39817 GCCGAACATG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 14 0.64
27 8 0.36
ACGTcount: A:0.38, C:0.04, G:0.13, T:0.44
Consensus pattern (26 bp):
AAATGTTAAATTTAAATACTGCTATG
Found at i:47259 original size:85 final size:85
Alignment explanation
Indices: 47121--47278 Score: 219
Period size: 85 Copynumber: 1.9 Consensus size: 85
47111 CGACTGTATG
* * * *
47121 CACAAGTCAGAGAGCTACATGGGATCAAACACATCCTCGAGCATGGGTATGTCCTAGGGTCACAT
1 CACAAGTCAGAGAGCTACATGGGATCAAACACATCCTCCAGCACGGGCATGTCCTAGGGTCACAC
*
47186 GGGTGTGTCCAAGGCTGTGC
66 GGGCGTGTCCAAGGCTGTGC
* * * *
47206 CACAAGTCAGAGAGTTACATGGGGTCAAACATCA-CCTCCAGCACGGGCGTGTCCTATGGTCACA
1 CACAAGTCAGAGAGCTACATGGGATCAAACA-CATCCTCCAGCACGGGCATGTCCTAGGGTCACA
47270 CGGGCGTGT
65 CGGGCGTGT
47279 GAGCCCTACA
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
85 61 0.97
86 2 0.03
ACGTcount: A:0.25, C:0.25, G:0.29, T:0.20
Consensus pattern (85 bp):
CACAAGTCAGAGAGCTACATGGGATCAAACACATCCTCCAGCACGGGCATGTCCTAGGGTCACAC
GGGCGTGTCCAAGGCTGTGC
Found at i:55715 original size:27 final size:27
Alignment explanation
Indices: 55685--55862 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
55675 ATATTGAGTC
* * * *
55685 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
55712 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
55739 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
55767 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
55794 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
55821 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
55848 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
55863 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:55824 original size:82 final size:81
Alignment explanation
Indices: 55706--55861 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
55696 TGCTATATAA
* *
55706 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
55771 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
55788 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
55852 CACTTAGTGC
65 CACTTAGTGC
55862 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:59114 original size:15 final size:15
Alignment explanation
Indices: 59091--59129 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
59081 TAAATGACTT
*
59091 CCTAAGGTTATCAAG
1 CCTAGGGTTATCAAG
*
59106 CCTAGGGTTGTCAAG
1 CCTAGGGTTATCAAG
59121 CCTAGGGTT
1 CCTAGGGTT
59130 TAAGTCTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (15 bp):
CCTAGGGTTATCAAG
Found at i:64017 original size:27 final size:26
Alignment explanation
Indices: 63981--64090 Score: 121
Period size: 27 Copynumber: 4.1 Consensus size: 26
63971 CAGCATGGCT
* *
63981 ACCAGAACAGATAATGTGACAGAGTC
1 ACCAGAACAGATAATGTGGCAGAGCC
*
64007 ACCAGATACAGATGATCGTGGCAGAGCC
1 ACCAGA-ACAGATAAT-GTGGCAGAGCC
*
64035 ACCAGAACAGATATATATGGCAGAGCC
1 ACCAGAACAGATA-ATGTGGCAGAGCC
* * *
64062 ACTAGATCAGATAATTGTGGCATAGCC
1 ACCAGAACAGATAA-TGTGGCAGAGCC
64089 AC
1 AC
64091 TAGGACGCTT
Statistics
Matches: 71, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
26 7 0.10
27 47 0.66
28 17 0.24
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (26 bp):
ACCAGAACAGATAATGTGGCAGAGCC
Found at i:64045 original size:54 final size:54
Alignment explanation
Indices: 63981--64090 Score: 141
Period size: 54 Copynumber: 2.0 Consensus size: 54
63971 CAGCATGGCT
* * *
63981 ACCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATGATCGTGGCAGAGCC
1 ACCAGAACAGATATATATGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCC
* * * *
64035 ACCAGAACAGATATATATGGCAGAGCCACTAGATCAGATAATTGTGGCATAGCC
1 ACCAGAACAGATATATATGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCC
64089 AC
1 AC
64091 TAGGACGCTT
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
54 32 0.67
55 16 0.33
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (54 bp):
ACCAGAACAGATATATATGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCC
Found at i:73766 original size:43 final size:42
Alignment explanation
Indices: 73711--73861 Score: 141
Period size: 42 Copynumber: 3.6 Consensus size: 42
73701 TTCCGATATG
* *
73711 TGATTT-CGTGTAAG-CCACATCTGGGACATTGGCATCGATT
1 TGATTTACATGTAAGACCACGTCTGGGACATTGGCATCGATT
* * * *
73751 TGAGATTTACATGTAAGACCATGTTTAGGACATCGGCATCGTATT
1 T--GATTTACATGTAAGACCACGTCTGGGACATTGGCATCG-ATT
*
73796 TGATTT-CATGTAAGACC-CTGTCTGGGACAGTGGCATCGATATT
1 TGATTTACATGTAAGACCAC-GTCTGGGACATTGGCATCG--ATT
*
73839 TGA-TTACATGTAACACCACGTCT
1 TGATTTACATGTAAGACCACGTCT
73862 AGGATGTTGG
Statistics
Matches: 90, Mismatches: 12, Indels: 15
0.77 0.10 0.13
Matches are distributed among these distances:
40 1 0.01
42 33 0.37
43 33 0.37
44 19 0.21
45 4 0.04
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (42 bp):
TGATTTACATGTAAGACCACGTCTGGGACATTGGCATCGATT
Found at i:73824 original size:42 final size:41
Alignment explanation
Indices: 73711--73861 Score: 144
Period size: 43 Copynumber: 3.6 Consensus size: 41
73701 TTCCGATATG
* **
73711 TGATTTCGTGTAAG-CCACATCTGGGACATTGGCATCG-ATT
1 TGATTTCATGTAAGACCATGTCTGGGACA-TGGCATCGTATT
* *
73751 TGAGATTTACATGTAAGACCATGTTTAGGACATCGGCATCGTATT
1 T--GATTT-CATGTAAGACCATGTCTGGGACAT-GGCATCGTATT
*
73796 TGATTTCATGTAAGACCCTGTCTGGGACAGTGGCATCGATATT
1 TGATTTCATGTAAGACCATGTCTGGGACA-TGGCATCG-TATT
* * *
73839 TGATTACATGTAACACCACGTCT
1 TGATTTCATGTAAGACCATGTCT
73862 AGGATGTTGG
Statistics
Matches: 91, Mismatches: 12, Indels: 13
0.78 0.10 0.11
Matches are distributed among these distances:
40 1 0.01
42 32 0.35
43 37 0.41
44 17 0.19
45 4 0.04
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (41 bp):
TGATTTCATGTAAGACCATGTCTGGGACATGGCATCGTATT
Found at i:73873 original size:43 final size:43
Alignment explanation
Indices: 73704--73874 Score: 122
Period size: 43 Copynumber: 4.0 Consensus size: 43
73694 ATAGGATTTC
* * * * *
73704 CGATATGTGATTTCGTGTAAG-CCACATCTGGGACA-TTGGCAT
1 CGATATTTGATTACATGTAAGACCACGTCTAGGA-AGTTGGCAT
* * * *
73746 CGAT-TTGAGATTTACATGTAAGACCATGTTTAGGACA-TCGGCAT
1 CGATATT-TGA-TTACATGTAAGACCACGTCTAGGA-AGTTGGCAT
* *
73790 CG-TATTTGATTTCATGTAAGACC-CTGTCTGGGACAG-TGGCAT
1 CGATATTTGATTACATGTAAGACCAC-GTCTAGGA-AGTTGGCAT
* *
73832 CGATATTTGATTACATGTAACACCACGTCTAGGATGTTGGCAT
1 CGATATTTGATTACATGTAAGACCACGTCTAGGAAGTTGGCAT
73875 TGTACCAGCT
Statistics
Matches: 101, Mismatches: 19, Indels: 17
0.74 0.14 0.12
Matches are distributed among these distances:
41 1 0.01
42 35 0.35
43 44 0.44
44 21 0.21
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (43 bp):
CGATATTTGATTACATGTAAGACCACGTCTAGGAAGTTGGCAT
Found at i:76942 original size:42 final size:42
Alignment explanation
Indices: 76880--76961 Score: 155
Period size: 42 Copynumber: 2.0 Consensus size: 42
76870 TAGAAAAGTG
*
76880 CACTTTATTTGGAGGTAGCACTTCGAATATTTCTTGCATCCC
1 CACTTTATTTGGAGGCAGCACTTCGAATATTTCTTGCATCCC
76922 CACTTTATTTGGAGGCAGCACTTCGAATATTTCTTGCATC
1 CACTTTATTTGGAGGCAGCACTTCGAATATTTCTTGCATC
76962 ATTTTCAACA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.38
Consensus pattern (42 bp):
CACTTTATTTGGAGGCAGCACTTCGAATATTTCTTGCATCCC
Found at i:92430 original size:16 final size:17
Alignment explanation
Indices: 92409--92448 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
92399 AATCAAGATG
92409 AACATAAACCATAA-TC-
1 AACATAAACCA-AATTCA
92425 AACAT-AACCAAATTCA
1 AACATAAACCAAATTCA
92441 AACATAAA
1 AACATAAA
92449 ATTTAAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 2 0.10
15 7 0.33
16 10 0.48
17 2 0.10
ACGTcount: A:0.60, C:0.23, G:0.00, T:0.17
Consensus pattern (17 bp):
AACATAAACCAAATTCA
Found at i:93283 original size:55 final size:56
Alignment explanation
Indices: 93221--93356 Score: 213
Period size: 55 Copynumber: 2.4 Consensus size: 56
93211 TTCCAGATAG
*
93221 GGTCTTACTCGCATACATATATCGGAACCACATATCGATGCCAACGTATTAAACGT
1 GGTCTTACTCGCATACATATATCGAAACCACATATCGATGCCAACGTATTAAACGT
* * *
93277 -GTCTTACTCGCACACATATATCGAAATCACATATCGATGCCAACGTATTAGACGT
1 GGTCTTACTCGCATACATATATCGAAACCACATATCGATGCCAACGTATTAAACGT
93332 GGTCTTACT-GCCATACATATATCGA
1 GGTCTTACTCG-CATACATATATCGA
93357 TGCCATGGTT
Statistics
Matches: 73, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
55 52 0.71
56 21 0.29
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (56 bp):
GGTCTTACTCGCATACATATATCGAAACCACATATCGATGCCAACGTATTAAACGT
Found at i:93381 original size:47 final size:47
Alignment explanation
Indices: 93322--93412 Score: 141
Period size: 47 Copynumber: 1.9 Consensus size: 47
93312 GATGCCAACG
*
93322 TATTAGACGTGGTCTTACT-GC-CATACATATATCGATGCCATGGTTTT
1 TATTAAACGTGGTCTTACTCGCACAT--ATATATCGATGCCATGGTTTT
93369 TATTAAACGTGGTCTTACTCGCACATATATATCGATGCCATGGT
1 TATTAAACGTGGTCTTACTCGCACATATATATCGATGCCATGGT
93413 CTTACTCAGA
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
47 36 0.88
48 2 0.05
49 3 0.07
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (47 bp):
TATTAAACGTGGTCTTACTCGCACATATATATCGATGCCATGGTTTT
Found at i:95726 original size:27 final size:27
Alignment explanation
Indices: 95694--95822 Score: 179
Period size: 27 Copynumber: 4.8 Consensus size: 27
95684 ACCCCTGTAA
95694 GGTAAAATGACTATTTTGCCCTTATGT
1 GGTAAAATGACTATTTTGCCCTTATGT
* * *
95721 GATAAACTAACTATTTTGCCCTTATGT
1 GGTAAAATGACTATTTTGCCCTTATGT
*
95748 GGTAAAATGAC-AGTTTTGCCCTTATAT
1 GGTAAAATGACTA-TTTTGCCCTTATGT
* *
95775 GGTAAAATGACTAATTTGCCCTTAGGT
1 GGTAAAATGACTATTTTGCCCTTATGT
*
95802 GGTAAGATGACTATTTTGCCC
1 GGTAAAATGACTATTTTGCCC
95823 CTACGTGATG
Statistics
Matches: 88, Mismatches: 12, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
26 1 0.01
27 86 0.98
28 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (27 bp):
GGTAAAATGACTATTTTGCCCTTATGT
Found at i:96177 original size:34 final size:34
Alignment explanation
Indices: 96134--96254 Score: 172
Period size: 34 Copynumber: 3.6 Consensus size: 34
96124 TTTCATATTG
*
96134 TACTGTTACTAAAATGGGCTCAAGCCCAGACTGA
1 TACTGTTACTAAAATGGGCTCAAGCCCAGACTGC
* *
96168 TACTGTTACTAAAATGGGCTCAGGCCCAAACTGC
1 TACTGTTACTAAAATGGGCTCAAGCCCAGACTGC
* *
96202 TACTGTTATTGAAATGGGCTCAAGCCCAGACTGC
1 TACTGTTACTAAAATGGGCTCAAGCCCAGACTGC
* *
96236 TACT-ATACTGAAATGGGCT
1 TACTGTTACTAAAATGGGCT
96255 AAGGCCCTAA
Statistics
Matches: 78, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
33 13 0.17
34 65 0.83
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (34 bp):
TACTGTTACTAAAATGGGCTCAAGCCCAGACTGC
Found at i:98901 original size:36 final size:37
Alignment explanation
Indices: 98860--98936 Score: 129
Period size: 36 Copynumber: 2.1 Consensus size: 37
98850 GGCCTTGATT
98860 TCGATAGTCAATGTAAGACCATGTCTGGGACATGTC-
1 TCGATAGTCAATGTAAGACCATGTCTGGGACATGTCA
* *
98896 TCGATAGTCAGTGTAAGACCATGTTTGGGACATGTCA
1 TCGATAGTCAATGTAAGACCATGTCTGGGACATGTCA
98933 TCGA
1 TCGA
98937 CTTGATGGAT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
36 34 0.89
37 4 0.11
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (37 bp):
TCGATAGTCAATGTAAGACCATGTCTGGGACATGTCA
Found at i:109233 original size:15 final size:15
Alignment explanation
Indices: 109196--109224 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
109186 TTTCCCTATC
109196 TAATAATAATAATTA
1 TAATAATAATAATTA
109211 TAATAATAATAATT
1 TAATAATAATAATT
109225 TTATAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TAATAATAATAATTA
Found at i:111402 original size:76 final size:76
Alignment explanation
Indices: 111246--111398 Score: 290
Period size: 76 Copynumber: 2.0 Consensus size: 76
111236 GGTAAGTTTC
111246 TTGAACTTTTTAAGCAATTACATATCAACTTACCTTTTGTTGAGGCTATCTCGCAGATGCCTACA
1 TTGAACTTTTTAAGCAATTACATATCAACTTACCTTTTGTTGAGGCTATCTCGCAGATGCCTACA
111311 TACGCAAAATT
66 TACGCAAAATT
111322 TTGAACTTTTTAAGCAATTACATATCAACTTACCTTTTGTTGAGGCTATCTCGCAGATG-CTACA
1 TTGAACTTTTTAAGCAATTACATATCAACTTACCTTTTGTTGAGGCTATCTCGCAGATGCCTACA
*
111386 TATGCAAAATT
66 TACGCAAAATT
111397 TT
1 TT
111399 TGAAGGAGCT
Statistics
Matches: 76, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
75 17 0.22
76 59 0.78
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (76 bp):
TTGAACTTTTTAAGCAATTACATATCAACTTACCTTTTGTTGAGGCTATCTCGCAGATGCCTACA
TACGCAAAATT
Found at i:126655 original size:47 final size:49
Alignment explanation
Indices: 126398--126664 Score: 207
Period size: 47 Copynumber: 5.6 Consensus size: 49
126388 TGAGATCCAA
* * ** *
126398 TGTAAGACCATGTCTGGGACATGGCATTGGCATT-GAGACGA-GAGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGAC-TTCGATTCGATGAGCCAG
* * * * * **
126446 TGTAA-AACATGTCTAGGACAT-GCATCGGCTACGA---GATGTGTTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGACTTCGATTCGATGAGCCAG
* * * * *
126490 TGTAAGACTATGTCTGGGACATGGCATCGGC-ACGGATTTG-TGAGAGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGACTTC-GATTCGAT--GAGCCAG
* *
126540 TGTAAGACCATGTCTGGGACATGGCATCGGCTTCGATTTCGAT-AGTCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGACTTCGA-TTCGATGAGCCAG
*
126589 TGTAAGACCATGTCTGGGACATGGCATCGACTT-GA-TGGATGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGACTTCGATTCGATGAGCCAG
* *
126636 TGTAAAACCATGTCCGGGACATGGCATCG
1 TGTAAGACCATGTCTGGGACATGGCATCG
126665 GCATTATACC
Statistics
Matches: 184, Mismatches: 21, Indels: 29
0.79 0.09 0.12
Matches are distributed among these distances:
43 2 0.01
44 10 0.05
45 16 0.09
46 23 0.12
47 46 0.25
48 8 0.04
49 37 0.20
50 37 0.20
51 4 0.02
52 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (49 bp):
TGTAAGACCATGTCTGGGACATGGCATCGACTTCGATTCGATGAGCCAG
Found at i:126656 original size:96 final size:93
Alignment explanation
Indices: 126347--126666 Score: 296
Period size: 94 Copynumber: 3.4 Consensus size: 93
126337 TTATTTGCGT
* * * * * *
126347 GCTAGTGTAAGA-CTTGTCTGGGACAT-GCATCGGCCAC-ATTATGAGATCCAATGTAAGACCAT
1 GCTAGTGTAAAACCATGTCTGGGACATGGCATCGGCTACGA-GATGTG-T-CAGTGTAAGACCAT
* *
126409 GTCTGGGACATGGCATTGGCATTGA-GACGAGA
63 GTCTGGGACATGGCATCGAC-TTGATGA-GAGA
* * *
126441 GCTAGTGTAAAA-CATGTCTAGGACAT-GCATCGGCTACGAGATGTGTTAGTGTAAGACTATGTC
1 GCTAGTGTAAAACCATGTCTGGGACATGGCATCGGCTACGAGATGTGTCAGTGTAAGACCATGTC
* *
126504 TGGGACATGGCATCGGCAC-GGATTTGTGAGA
66 TGGGACATGGCATC-G-ACTTGA--TGAGAGA
* * **
126535 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTCGATTTCGATAGTCAGTGTAAGACCAT
1 GCTAGTGTAAAACCATGTCTGGGACATGGCATCGGCTACGAGAT-G-T-GTCAGTGTAAGACCAT
126600 GTCTGGGACATGGCATCGACTTGATG-GATGA
63 GTCTGGGACATGGCATCGACTTGATGAGA-GA
* *
126631 GCCAGTGTAAAACCATGTCCGGGACATGGCATCGGC
1 GCTAGTGTAAAACCATGTCTGGGACATGGCATCGGC
126667 ATTATACCCT
Statistics
Matches: 189, Mismatches: 24, Indels: 24
0.80 0.10 0.10
Matches are distributed among these distances:
92 29 0.15
93 2 0.01
94 53 0.28
95 17 0.09
96 50 0.26
97 3 0.02
98 4 0.02
99 31 0.16
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (93 bp):
GCTAGTGTAAAACCATGTCTGGGACATGGCATCGGCTACGAGATGTGTCAGTGTAAGACCATGTC
TGGGACATGGCATCGACTTGATGAGAGA
Found at i:127529 original size:16 final size:17
Alignment explanation
Indices: 127508--127557 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
127498 CACATTAAAG
127508 TGTTTT-TCGAAAACTA
1 TGTTTTATCGAAAACTA
*
127524 TGTTTTCATTGAAAACTA
1 TGTTTT-ATCGAAAACTA
*
127542 TGTTTTCATTGAAAAC
1 TGTTTT-ATCGAAAAC
127558 CCTTCTTATT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
16 6 0.19
18 25 0.81
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (17 bp):
TGTTTTATCGAAAACTA
Found at i:127539 original size:18 final size:18
Alignment explanation
Indices: 127516--127557 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
127506 AGTGTTTTTC
127516 GAAAACTATGTTTTCATT
1 GAAAACTATGTTTTCATT
127534 GAAAACTATGTTTTCATT
1 GAAAACTATGTTTTCATT
127552 GAAAAC
1 GAAAAC
127558 CCTTCTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (18 bp):
GAAAACTATGTTTTCATT
Found at i:128423 original size:32 final size:32
Alignment explanation
Indices: 128387--128457 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 32
128377 ATGCAGCTCT
* *
128387 AAGCCTTCAGTAGCAGTATTATAATTGGCACA
1 AAGCCATCAGTAACAGTATTATAATTGGCACA
* **
128419 AAGCCATCAGTAACTGTATTATGTTTGGCACA
1 AAGCCATCAGTAACAGTATTATAATTGGCACA
*
128451 TAGCCAT
1 AAGCCAT
128458 TAGCGACGAT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (32 bp):
AAGCCATCAGTAACAGTATTATAATTGGCACA
Found at i:128992 original size:27 final size:27
Alignment explanation
Indices: 128962--129116 Score: 156
Period size: 27 Copynumber: 5.8 Consensus size: 27
128952 CACTAGAAGA
* * *
128962 GTATTTCGGTGATTTTACAAACTGGGG
1 GTATTTCAGTAATTTTACAAACTGAGG
*
128989 GTATTTCAGTAATTTTAC-AAGTCGAGG
1 GTATTTCAGTAATTTTACAAACT-GAGG
*
129016 GTATTTC-GATAATTTTACAAATTGAGG
1 GTATTTCAG-TAATTTTACAAACTGAGG
* ** *
129043 GTTTTTTGGTAATTTTACAAA-TTAGG
1 GTATTTCAGTAATTTTACAAACTGAGG
* *
129069 GTATTTCATTAATTTTACAACCT-AGAG
1 GTATTTCAGTAATTTTACAAACTGAG-G
129096 GTATTTCAGTAATTTTACAAA
1 GTATTTCAGTAATTTTACAAA
129117 TCAGGGGTTT
Statistics
Matches: 107, Mismatches: 15, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
26 26 0.24
27 77 0.72
28 4 0.04
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.41
Consensus pattern (27 bp):
GTATTTCAGTAATTTTACAAACTGAGG
Found at i:128992 original size:54 final size:54
Alignment explanation
Indices: 128934--129115 Score: 140
Period size: 54 Copynumber: 3.4 Consensus size: 54
128924 ACCCTAGACA
* * *
128934 GGTATTTTGGTAATTTAAC-ACTAGAAGAGTATTTCGGTGATTTTACAAACTGGG
1 GGTATTTTGGTAATTTAACAACTAG-AGAGTATTTCGATAATTTTACAAACTGAG
** * * * * *
128988 GGTATTTCAGTAATTTTACAAGTCGAGGGTATTTCGATAATTTTACAAATTGAG
1 GGTATTTTGGTAATTTAACAACTAGAGAGTATTTCGATAATTTTACAAACTGAG
* * * *
129042 GGTTTTTTGGTAATTTTACAAATTAG-G-GTATTTC-ATTAATTTTACAACCT-AG
1 GGTATTTTGGTAATTTAAC-AACTAGAGAGTATTTCGA-TAATTTTACAAACTGAG
** *
129094 AGGTATTTCAGTAATTTTACAA
1 -GGTATTTTGGTAATTTAACAA
129116 ATCAGGGGTT
Statistics
Matches: 104, Mismatches: 20, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
52 5 0.05
53 35 0.34
54 57 0.55
55 7 0.07
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (54 bp):
GGTATTTTGGTAATTTAACAACTAGAGAGTATTTCGATAATTTTACAAACTGAG
Found at i:129108 original size:53 final size:52
Alignment explanation
Indices: 128962--129122 Score: 171
Period size: 53 Copynumber: 3.0 Consensus size: 52
128952 CACTAGAAGA
* * * * *
128962 GTATTTCGGTGATTTTACAAACTGGGGGTATTTCAGTAATTTTACAAGTCGAGG
1 GTATTTCGATAATTTTAC-AACTAGAGGTATTTCAGTAATTTTACAAATC-AGG
* * * ** *
129016 GTATTTCGATAATTTTACAAATTGAGGGTTTTTTGGTAATTTTACAAATTAGG
1 GTATTTCGATAATTTTACAACTAGA-GGTATTTCAGTAATTTTACAAATCAGG
129069 GTATTTC-ATTAATTTTACAACCTAGAGGTATTTCAGTAATTTTACAAATCAGG
1 GTATTTCGA-TAATTTTACAA-CTAGAGGTATTTCAGTAATTTTACAAATCAGG
129122 G
1 G
129123 GTTTTAACGA
Statistics
Matches: 88, Mismatches: 16, Indels: 7
0.79 0.14 0.06
Matches are distributed among these distances:
52 1 0.01
53 49 0.56
54 38 0.43
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (52 bp):
GTATTTCGATAATTTTACAACTAGAGGTATTTCAGTAATTTTACAAATCAGG
Found at i:129125 original size:80 final size:81
Alignment explanation
Indices: 128973--129127 Score: 201
Period size: 80 Copynumber: 1.9 Consensus size: 81
128963 TATTTCGGTG
* * *
128973 ATTTTACAAACTGGGGGTATTTCAGTAATTTTACAAGTCGAGGGTATTTCGATAATTTTACAAAT
1 ATTTTACAAACTGAGGGTATTTCAGTAATTTTACAACTAGAGGGTATTTCGATAATTTTACAAAT
*
129038 TGAGGGTTTTTTGGTA
66 AGAGGGTTTTTTGGTA
* *
129054 ATTTTACAAA-TTAGGGTATTTCATTAATTTTACAACCTAGA-GGTATTTC-AGTAATTTTACAA
1 ATTTTACAAACTGAGGGTATTTCAGTAATTTTACAA-CTAGAGGGTATTTCGA-TAATTTTACAA
129116 ATCAG-GGGTTTT
64 AT-AGAGGGTTTT
129128 AACGACCCAA
Statistics
Matches: 65, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
79 1 0.02
80 50 0.77
81 14 0.22
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.41
Consensus pattern (81 bp):
ATTTTACAAACTGAGGGTATTTCAGTAATTTTACAACTAGAGGGTATTTCGATAATTTTACAAAT
AGAGGGTTTTTTGGTA
Found at i:148492 original size:37 final size:37
Alignment explanation
Indices: 148451--148538 Score: 176
Period size: 37 Copynumber: 2.4 Consensus size: 37
148441 AACATAGACA
148451 TGTATGTTCGGCCACATGAATAAGTACATAAGTTATG
1 TGTATGTTCGGCCACATGAATAAGTACATAAGTTATG
148488 TGTATGTTCGGCCACATGAATAAGTACATAAGTTATG
1 TGTATGTTCGGCCACATGAATAAGTACATAAGTTATG
148525 TGTATGTTCGGCCA
1 TGTATGTTCGGCCA
148539 TAGGTAGCCT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 51 1.00
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.33
Consensus pattern (37 bp):
TGTATGTTCGGCCACATGAATAAGTACATAAGTTATG
Found at i:149238 original size:39 final size:41
Alignment explanation
Indices: 149137--149320 Score: 213
Period size: 39 Copynumber: 4.6 Consensus size: 41
149127 TCGAATGATG
* * *
149137 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAATA
*
149177 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAATA
*
149217 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATA
*
149256 TCCGGGTTAAGT-CCGAAGGCATTTGTGCGAGTTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATA
* * *
149295 ACCGGTCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
149321 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 12, Indels: 16
0.82 0.08 0.11
Matches are distributed among these distances:
38 1 0.01
39 67 0.54
40 46 0.37
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATA
Found at i:149342 original size:78 final size:78
Alignment explanation
Indices: 149174--149343 Score: 202
Period size: 78 Copynumber: 2.2 Consensus size: 78
149164 CTAAGTGACC
* *
149174 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCAT
1 ATATCCGG-TTAAGATCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCAT
**
149239 TGGTGCGAGTTACT
65 TGGAACGAGTTACT
* * *
149253 AAATCCGGGTTAAG-TCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGTCTATGTCCCGAAGGC
1 ATATCC-GGTTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGC
*
149316 ATTTGAACGAG-TAGCT
63 ATTGGAACGAGTTA-CT
149332 ATATCCGGTTAA
1 ATATCCGGTTAA
149344 ATTCTGAAGG
Statistics
Matches: 78, Mismatches: 9, Indels: 9
0.81 0.09 0.09
Matches are distributed among these distances:
77 2 0.03
78 41 0.53
79 33 0.42
80 2 0.03
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (78 bp):
ATATCCGGTTAAGATCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATT
GGAACGAGTTACT
Found at i:154588 original size:23 final size:21
Alignment explanation
Indices: 154533--154589 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 21
154523 TGAGTTTATT
*
154533 TGTTTTTTTCTTTTTCTTTTA
1 TGTTTTTTTATTTTTCTTTTA
*
154554 TGTTTATGTTTATTTTTCTTTTT
1 TGTTT-T-TTTATTTTTCTTTTA
154577 TAGTTGTTTTTAT
1 T-GTT-TTTTTAT
154590 AGTTATTTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
21 5 0.17
22 1 0.03
23 19 0.63
24 4 0.13
25 1 0.03
ACGTcount: A:0.09, C:0.05, G:0.09, T:0.77
Consensus pattern (21 bp):
TGTTTTTTTATTTTTCTTTTA
Found at i:157559 original size:16 final size:16
Alignment explanation
Indices: 157540--157585 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 16
157530 AAAAAATTAA
157540 AAAACTAAATTAGTAC
1 AAAACTAAATTAGTAC
157556 AAAAC--AATTAGT--
1 AAAACTAAATTAGTAC
157568 -AAACTAAATTAGTAC
1 AAAACTAAATTAGTAC
157583 AAA
1 AAA
157586 TCGTATCTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 10
0.71 0.00 0.29
Matches are distributed among these distances:
11 4 0.16
13 7 0.28
14 7 0.28
16 7 0.28
ACGTcount: A:0.59, C:0.11, G:0.07, T:0.24
Consensus pattern (16 bp):
AAAACTAAATTAGTAC
Found at i:158368 original size:18 final size:18
Alignment explanation
Indices: 158345--158381 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
158335 CTTGACCCAT
*
158345 TGCAGTAACAGTAAACAG
1 TGCAGTAACAGAAAACAG
158363 TGCAGTAACAGAAAACAG
1 TGCAGTAACAGAAAACAG
158381 T
1 T
158382 ATGCAAGTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.16, G:0.22, T:0.16
Consensus pattern (18 bp):
TGCAGTAACAGAAAACAG
Found at i:158765 original size:27 final size:27
Alignment explanation
Indices: 158713--158765 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
158703 ACATAGGGGC
* *
158713 AAAATAGTCATTTTACCACATAAGGGA
1 AAAATAGTCATTTCACCAAATAAGGGA
* *
158740 AAAATAGTCATTTCATCAAATTAGGG
1 AAAATAGTCATTTCACCAAATAAGGG
158766 TCTAGGTATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.28
Consensus pattern (27 bp):
AAAATAGTCATTTCACCAAATAAGGGA
Found at i:161122 original size:98 final size:98
Alignment explanation
Indices: 160953--161146 Score: 343
Period size: 98 Copynumber: 2.0 Consensus size: 98
160943 TCATAAAGAA
* * * *
160953 AATTAAAAACTGTATAAATAAAAGGGACTTTGAGAAACTAATTTCTAATCTCAGTTAAATGAAGA
1 AATTAAAAACTGCATAAATAAAAGGGACTTTGAAAAACTAATTTCTAAACTCAGTTAAACGAAGA
*
161018 CATGGGTGATTAGCTTGCTTTGGTGATTATACG
66 CATGGGTGATTAGCTTGCGTTGGTGATTATACG
161051 AATTAAAAACTGCATAAATAAAAGGGACTTTGAAAAACTAATTTCTAAACTCAGTTAAACGAAGA
1 AATTAAAAACTGCATAAATAAAAGGGACTTTGAAAAACTAATTTCTAAACTCAGTTAAACGAAGA
161116 CATGGGTGATTAGCTTGCGTTGGTGATTATA
66 CATGGGTGATTAGCTTGCGTTGGTGATTATA
161147 AGTAATTCCT
Statistics
Matches: 91, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 91 1.00
ACGTcount: A:0.39, C:0.11, G:0.19, T:0.31
Consensus pattern (98 bp):
AATTAAAAACTGCATAAATAAAAGGGACTTTGAAAAACTAATTTCTAAACTCAGTTAAACGAAGA
CATGGGTGATTAGCTTGCGTTGGTGATTATACG
Found at i:164363 original size:26 final size:24
Alignment explanation
Indices: 164334--164401 Score: 66
Period size: 26 Copynumber: 2.7 Consensus size: 24
164324 TGTTTTATTT
164334 AATTAACTTTATTTTATAAATTACTA
1 AATTAACTTTATTTTATAAATTA--A
* *
164360 AATTAACCTTGATTTTAAAAAATTAA
1 AATTAA-CTTTATTTT-ATAAATTAA
*
164386 AATTCAC-TTATTTTAT
1 AATTAACTTTATTTTAT
164402 GTCCATAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
23 1 0.03
24 6 0.17
25 1 0.03
26 12 0.34
27 8 0.23
28 7 0.20
ACGTcount: A:0.43, C:0.09, G:0.01, T:0.47
Consensus pattern (24 bp):
AATTAACTTTATTTTATAAATTAA
Found at i:168243 original size:43 final size:43
Alignment explanation
Indices: 168195--168335 Score: 153
Period size: 43 Copynumber: 3.3 Consensus size: 43
168185 ATCTCGTACA
* *
168195 ATGCCAACGCCCCAAACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAAACATGGTCTTACATGTAATCAAATATCG
* * *
168238 ATGCC-ACTGTCCCAAACAAGGTCTTACATGAAATCATATA-CG
1 ATGCCAAC-GTCCCAAACATGGTCTTACATGTAATCAAATATCG
* * * *
168280 ATGCCAATGTCCCAGACATGGTCTCACATGTAAATCACAA-ATCA
1 ATGCCAACGTCCCAAACATGGTCTTACATGT-AATCA-AATATCG
168324 ATGCCAACGTCC
1 ATGCCAACGTCC
168336 TAGATGTGGT
Statistics
Matches: 80, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
42 28 0.35
43 39 0.49
44 13 0.16
ACGTcount: A:0.34, C:0.28, G:0.15, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAAACATGGTCTTACATGTAATCAAATATCG
Found at i:173536 original size:27 final size:27
Alignment explanation
Indices: 173493--173581 Score: 97
Period size: 27 Copynumber: 3.2 Consensus size: 27
173483 GACCTCAGTT
*
173493 TGTAAAATTATCGAAATACCCTTATAG
1 TGTAAAATTACCGAAATACCCTTATAG
* * **
173520 TGTAAAATTACCAAAATACCCCTCGATTT
1 TGTAAAATTACCGAAATA-CCCT-TATAG
* *
173549 TGTAAAATTACTGAAATACCCTTGTAG
1 TGTAAAATTACCGAAATACCCTTATAG
173576 TGTAAA
1 TGTAAA
173582 TTAATGAAAA
Statistics
Matches: 49, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
27 23 0.47
28 8 0.16
29 18 0.37
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (27 bp):
TGTAAAATTACCGAAATACCCTTATAG
Found at i:173589 original size:26 final size:27
Alignment explanation
Indices: 173553--173608 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
173543 CGATTTTGTA
* *
173553 AAATTACTG-AAATACC-CTTGTAGTGT
1 AAATTAATGAAAATACCTC-TGTAGGGT
173579 AAATTAATGAAAATACCTCTGTAGGGT
1 AAATTAATGAAAATACCTCTGTAGGGT
173606 AAA
1 AAA
173609 ATGACTGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 8 0.31
27 17 0.65
28 1 0.04
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.30
Consensus pattern (27 bp):
AAATTAATGAAAATACCTCTGTAGGGT
Found at i:178507 original size:42 final size:43
Alignment explanation
Indices: 178429--178569 Score: 144
Period size: 42 Copynumber: 3.3 Consensus size: 43
178419 TCATAGACAT
* * *
178429 GGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAAACAG
1 GGTCTTACACGAAATCAAATATCGATGCCAATGTCCCAAACAG
* * *
178472 GGTCTTACACGAAATCATATA-CGATGCCAATGTCCCAGACAT
1 GGTCTTACACGAAATCAAATATCGATGCCAATGTCCCAAACAG
* ** *
178514 GGTCTTACACGTAAATCACAA-ATCAATGCCAACATCCCAGAC-G
1 GGTCTTACACG-AAATCA-AATATCGATGCCAATGTCCCAAACAG
178557 TGGTCTTACACGA
1 -GGTCTTACACGA
178570 TAACACATAT
Statistics
Matches: 83, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
42 29 0.35
43 26 0.31
44 28 0.34
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.23
Consensus pattern (43 bp):
GGTCTTACACGAAATCAAATATCGATGCCAATGTCCCAAACAG
Found at i:190010 original size:32 final size:32
Alignment explanation
Indices: 189969--190032 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
189959 ACTGCAACCG
189969 GTGAAAATTCCACTATGGAAGTGGGAAAGAGT
1 GTGAAAATTCCACTATGGAAGTGGGAAAGAGT
*
190001 GTGAAAATTCCGCTATGGAAGTGGGAAAGAGT
1 GTGAAAATTCCACTATGGAAGTGGGAAAGAGT
190033 AACAATGGAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.36, C:0.09, G:0.33, T:0.22
Consensus pattern (32 bp):
GTGAAAATTCCACTATGGAAGTGGGAAAGAGT
Found at i:210225 original size:21 final size:22
Alignment explanation
Indices: 210193--210233 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
210183 AACATAAAGT
210193 AAAATAAATAAATA-AAAGAAAC
1 AAAATAAATAAA-AGAAAGAAAC
210215 AAAAT-AATAAAAGAAAGAA
1 AAAATAAATAAAAGAAAGAA
210234 CAGAAGGCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 1 0.06
21 12 0.67
22 5 0.28
ACGTcount: A:0.78, C:0.02, G:0.07, T:0.12
Consensus pattern (22 bp):
AAAATAAATAAAAGAAAGAAAC
Found at i:215000 original size:21 final size:21
Alignment explanation
Indices: 214975--215015 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
214965 ATGAGTCTTC
*
214975 AAAAATAAATAGAAATAAAAGT
1 AAAAA-AAATAAAAATAAAAGT
214997 AAAAAAAATAAAAATAAAA
1 AAAAAAAATAAAAATAAAA
215016 AGAGGCACGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.15
Consensus pattern (21 bp):
AAAAAAAATAAAAATAAAAGT
Found at i:215015 original size:15 final size:15
Alignment explanation
Indices: 214975--215016 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
214965 ATGAGTCTTC
*
214975 AAAAATAAATAGAAAT
1 AAAAATAAA-AAAAAT
*
214991 AAAAGTAAAAAAAAT
1 AAAAATAAAAAAAAT
215006 AAAAATAAAAA
1 AAAAATAAAAA
215017 GAGGCACGGC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
15 15 0.65
16 8 0.35
ACGTcount: A:0.81, C:0.00, G:0.05, T:0.14
Consensus pattern (15 bp):
AAAAATAAAAAAAAT
Found at i:222646 original size:17 final size:18
Alignment explanation
Indices: 222616--222654 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
222606 CATGTGGCCT
222616 GCCCGTGTGGGCCCACAC
1 GCCCGTGTGGGCCCACAC
*
222634 GCCCGTG-GGGCCCACAG
1 GCCCGTGTGGGCCCACAC
222651 GCCC
1 GCCC
222655 AAATTGGCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.10, C:0.46, G:0.36, T:0.08
Consensus pattern (18 bp):
GCCCGTGTGGGCCCACAC
Found at i:232700 original size:13 final size:13
Alignment explanation
Indices: 232668--232693 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
232658 AATGCAACAT
232668 ATCACATAGTGAG
1 ATCACATAGTGAG
232681 ATCACATAGTGAG
1 ATCACATAGTGAG
232694 TATACATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.23
Consensus pattern (13 bp):
ATCACATAGTGAG
Found at i:233084 original size:31 final size:31
Alignment explanation
Indices: 233049--233112 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
233039 GTGCGTACAG
233049 CTTAGTTCGTCGACCACACGACCGTGTACTA
1 CTTAGTTCGTCGACCACACGACCGTGTACTA
* *
233080 CTTAGTTCGTCGACCACATGGCCGTGTACTA
1 CTTAGTTCGTCGACCACACGACCGTGTACTA
233111 CT
1 CT
233113 ACACAACCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.20, C:0.31, G:0.20, T:0.28
Consensus pattern (31 bp):
CTTAGTTCGTCGACCACACGACCGTGTACTA
Found at i:243926 original size:27 final size:27
Alignment explanation
Indices: 243895--244072 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
243885 TAAATTGTAC
243895 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
243922 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
243948 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
243976 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
244004 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
244031 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
244058 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
244073 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:244009 original size:82 final size:81
Alignment explanation
Indices: 243896--244051 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
243886 AAATTGTACA
* *
243896 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
243960 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
243977 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
244042 TGCGAGTTGA
65 TGCGAATTGA
244052 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:244063 original size:82 final size:81
Alignment explanation
Indices: 243892--244072 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
243882 GATTAAATTG
* *
243892 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
243957 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
243973 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
244037 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
244055 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
244073 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:251981 original size:27 final size:27
Alignment explanation
Indices: 251950--252127 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
251940 TAAATTGTAC
251950 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
251977 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
252003 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
252031 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
252059 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
252086 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
252113 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
252128 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:252064 original size:82 final size:81
Alignment explanation
Indices: 251951--252106 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
251941 AAATTGTACA
* *
251951 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
252015 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
252032 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
252097 TGCGAGTTGA
65 TGCGAATTGA
252107 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:252118 original size:82 final size:81
Alignment explanation
Indices: 251947--252127 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
251937 GATTAAATTG
* *
251947 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
252012 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
252028 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
252092 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
252110 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
252128 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:257785 original size:145 final size:145
Alignment explanation
Indices: 257587--257860 Score: 512
Period size: 145 Copynumber: 1.9 Consensus size: 145
257577 AACTCGAGGT
* *
257587 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
257652 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
257717 ATTTCAAGTTCGCAC
131 ATTTCAAGTTCGCAC
*
257732 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
257797 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATG
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATG
257861 TACTTTAAAC
Statistics
Matches: 125, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
145 125 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (145 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ATTTCAAGTTCGCAC
Found at i:257879 original size:29 final size:30
Alignment explanation
Indices: 257845--257916 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 30
257835 ATCAACCACG
*
257845 CACACTTAGTGCCATGTAC-TTTAAACTCA
1 CACACTTAGTGCCATGTACATTTAAACCCA
*
257874 CACACTTAGTG-C-TGTACAATTTAAACCCG
1 CACACTTAGTGCCATGTAC-ATTTAAACCCA
257903 CACACTTAGTGCCA
1 CACACTTAGTGCCA
257917 ATCTCATGAC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
27 5 0.14
28 1 0.03
29 30 0.81
30 1 0.03
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.28
Consensus pattern (30 bp):
CACACTTAGTGCCATGTACATTTAAACCCA
Found at i:259781 original size:40 final size:40
Alignment explanation
Indices: 259725--259902 Score: 252
Period size: 40 Copynumber: 4.5 Consensus size: 40
259715 CGGATGATAA
*
259725 CCGGGCCAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
*
259765 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
* **
259805 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
* *
259845 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATTT
**
259885 CC-GGCTAAACCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
259903 TACTTGGTTG
Statistics
Matches: 126, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 16 0.13
40 110 0.87
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
Found at i:267973 original size:40 final size:40
Alignment explanation
Indices: 267918--268132 Score: 317
Period size: 40 Copynumber: 5.4 Consensus size: 40
267908 ATGATAACCG
*
267918 GGCTAAGTCCCGAAGGTATTTGTGCGAGTTACTATTTCCA
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCA
*
267958 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCA
*
267998 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCA
* **
268038 GGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACCA
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCA
* *
268078 GGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC-
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATTTCCA
**
268117 GGCTAAACCCCGAAGG
1 GGCTAAGTCCCGAAGG
268133 TACTTGGTTG
Statistics
Matches: 163, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 16 0.10
40 147 0.90
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCA
Found at i:274092 original size:27 final size:27
Alignment explanation
Indices: 274061--274401 Score: 448
Period size: 27 Copynumber: 12.6 Consensus size: 27
274051 TTAATTTACC
*
274061 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
274088 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
274115 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
**
274142 AAATTACCAAAATACCCCTAATTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* ** * *
274169 AAATTACTAAAATACCATTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
274196 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
**
274223 AAATTACCAAAATACCCCTAATTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* ** * *
274250 AAATTACTAAAATACCATTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
274277 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
274304 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
274331 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
274358 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
*
274385 AAATTACTAAAATACCC
1 AAATTACCAAAATACCC
274402 TCGACCTGTA
Statistics
Matches: 272, Mismatches: 42, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 272 1.00
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:274193 original size:81 final size:81
Alignment explanation
Indices: 274055--274473 Score: 509
Period size: 81 Copynumber: 5.2 Consensus size: 81
274045 AATACTTTAA
* * *
274055 TTTACCAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATT
1 TTTACAAAATTACCAAAATACCCCTAATTTGTAAAATTACTAAAATACCCTTAGTTTATAAAATT
*
274120 ACCAAAATACCCTTGG
66 ACCAAAATACCCCTGG
* *
274136 TTTACAAAATTACCAAAATACCCCTAATTTGTAAAATTACTAAAATACCATTTGTTTATAAAATT
1 TTTACAAAATTACCAAAATACCCCTAATTTGTAAAATTACTAAAATACCCTTAGTTTATAAAATT
274201 ACCAAAATACCCCTGG
66 ACCAAAATACCCCTGG
** * *
274217 TTTGTAAAATTACCAAAATACCCCTAATTTGTAAAATTACTAAAATACCATTTGTTTATAAAATT
1 TTTACAAAATTACCAAAATACCCCTAATTTGTAAAATTACTAAAATACCCTTAGTTTATAAAATT
274282 ACCAAAATACCCCTGG
66 ACCAAAATACCCCTGG
** ** * *
274298 TTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTA-TCAAAATACCCCTAGTTTGTAAAAT
1 TTTACAAAATTACCAAAATACCCCTAATTTGTAAAATTACT-AAAATACCCTTAGTTTATAAAAT
*
274362 TACCAAAATACCCCTGA
65 TACCAAAATACCCCTGG
*** * * ** * * * ** *
274379 TTTGTGAAATTACTAAAATA-CCCTCGACCTGTAAAATTATTGAAATACCCTCAACTTGTAAAAT
1 TTTACAAAATTACCAAAATACCCCT-AATTTGTAAAATTACTAAAATACCCTTAGTTTATAAAAT
* * *
274443 TACCAAAGTACCCTTGA
65 TACCAAAATACCCCTGG
274460 TTTACAAAATTACC
1 TTTACAAAATTACC
274474 GTTTTACCCT
Statistics
Matches: 305, Mismatches: 30, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
80 5 0.02
81 299 0.98
82 1 0.00
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.32
Consensus pattern (81 bp):
TTTACAAAATTACCAAAATACCCCTAATTTGTAAAATTACTAAAATACCCTTAGTTTATAAAATT
ACCAAAATACCCCTGG
Found at i:274415 original size:27 final size:27
Alignment explanation
Indices: 274061--274510 Score: 245
Period size: 27 Copynumber: 16.7 Consensus size: 27
274051 TTAATTTACC
* *
274061 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-CTTGTA
* * ** *
274088 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTCGACTTGTA
* ** **
274115 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTCGACTTGTA
* *
274142 AAATTACCAAAATACCC-CTAATTTGTA
1 AAATTACCAAAATACCCTC-GACTTGTA
* * * * *
274169 AAATTACTAAAATACCATTTG-TTTATA
1 AAATTACCAAAATACC-CTCGACTTGTA
**
274196 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GACTTGTA
* *
274223 AAATTACCAAAATACCC-CTAATTTGTA
1 AAATTACCAAAATACCCTC-GACTTGTA
* * * * *
274250 AAATTACTAAAATACCATTTG-TTTATA
1 AAATTACCAAAATACC-CTCGACTTGTA
**
274277 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GACTTGTA
**
274304 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GACTTGTA
* * *
274331 AAATTATCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-CTTGTA
* *
274358 AAATTACCAAAATACCC-CTGATTTGTG
1 AAATTACCAAAATACCCTC-GACTTGTA
* *
274385 AAATTACTAAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCTCGACTTGTA
*** *
274412 AAATTATTGAAATACCCTCAACTTGTA
1 AAATTACCAAAATACCCTCGACTTGTA
* * * **
274439 AAATTACCAAAGTACCCTTGATTTACA
1 AAATTACCAAAATACCCTCGACTTGTA
**** * **
274466 AAATTACCGTTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTCGACTTGTA
274493 AAATTACCAAAATACCCT
1 AAATTACCAAAATACCCT
274511 TGTAGGGTAG
Statistics
Matches: 346, Mismatches: 64, Indels: 26
0.79 0.15 0.06
Matches are distributed among these distances:
26 2 0.01
27 342 0.99
28 2 0.01
ACGTcount: A:0.40, C:0.21, G:0.07, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGACTTGTA
Found at i:274527 original size:27 final size:27
Alignment explanation
Indices: 274494--274922 Score: 538
Period size: 27 Copynumber: 16.3 Consensus size: 27
274484 CGATTTACAA
* *
274494 AATTACCAAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
274521 AAATACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
**
274548 AATTATTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
274575 AATTACCGCAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
274602 AATTATCGCAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
274629 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
274656 AATTACCGAAATACCCTTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
*
274683 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
274710 AATTACTGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
274737 AATTACCGAAATACCCCCTGTAGGGTAG
1 AATTACCGAAATA-CCCCTGTAGGGTAG
274765 AATTACCGAAATA-CCC--------AG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
274783 AATTATCGCAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
274810 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
274837 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
**
274864 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
274891 AATTATCGAGATA-CCTTGT-GGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
274916 AATTACC
1 AATTACC
274923 ATTTTGCCCC
Statistics
Matches: 356, Mismatches: 36, Indels: 22
0.86 0.09 0.05
Matches are distributed among these distances:
18 13 0.04
19 3 0.01
25 11 0.03
26 8 0.02
27 295 0.83
28 26 0.07
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:274786 original size:18 final size:18
Alignment explanation
Indices: 274763--274798 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
274753 CCTGTAGGGT
274763 AGAATTACCGAAATACCC
1 AGAATTACCGAAATACCC
* *
274781 AGAATTATCGCAATACCC
1 AGAATTACCGAAATACCC
274799 CTATAGGGTA
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:0.42, C:0.28, G:0.11, T:0.19
Consensus pattern (18 bp):
AGAATTACCGAAATACCC
Found at i:274811 original size:45 final size:46
Alignment explanation
Indices: 274735--274825 Score: 148
Period size: 45 Copynumber: 2.0 Consensus size: 46
274725 CCTGTAAGGT
*
274735 AGAATTACCGAAATACCCCCTGTAGGGTAGAATTACCGAAATACCC
1 AGAATTACCGAAATACCCCCTATAGGGTAGAATTACCGAAATACCC
* *
274781 AGAATTATCGCAATA-CCCCTATAGGGTAGAATTACCGAAATACCC
1 AGAATTACCGAAATACCCCCTATAGGGTAGAATTACCGAAATACCC
274826 CTGTAGGGTA
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
45 29 0.69
46 13 0.31
ACGTcount: A:0.37, C:0.25, G:0.16, T:0.21
Consensus pattern (46 bp):
AGAATTACCGAAATACCCCCTATAGGGTAGAATTACCGAAATACCC
Found at i:275408 original size:22 final size:22
Alignment explanation
Indices: 275348--275412 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 22
275338 TTAAAGCCTT
* * *
275348 CTGATTATGGCTTTCTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
* *
275370 CT-ACATATAGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
275392 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
275413 ACATATTTGC
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
21 1 0.03
22 31 0.94
23 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:275600 original size:27 final size:27
Alignment explanation
Indices: 275570--275671 Score: 125
Period size: 27 Copynumber: 3.8 Consensus size: 27
275560 ATTCTGTTAA
* *
275570 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
* *
275597 GTGGCTATGCCACAAATATCT-ATTCTG
1 GTGGCTCTGCCAC-AATATCTGTTTCTG
*
275624 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
* *
275651 GTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTG
275672 ATAACTGAGC
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
26 7 0.11
27 52 0.80
28 6 0.09
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.36
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTTTCTG
Found at i:275848 original size:31 final size:31
Alignment explanation
Indices: 275813--275935 Score: 151
Period size: 31 Copynumber: 4.0 Consensus size: 31
275803 CTCATTTTTT
* *
275813 ATTCTGTTACCTGATACTGGTTCTGATTTTG
1 ATTCTGTTACCTGATACTGATTCTGATTCTG
275844 ATTCTGTTACCTGATACTGATTCTGATTCTG
1 ATTCTGTTACCTGATACTGATTCTGATTCTG
* * *
275875 ATTCTGTCACCTAATTCTGATTCTGATTCTG
1 ATTCTGTTACCTGATACTGATTCTGATTCTG
* * *
275906 ATTCTAGTT--CTGATAATGTTTCTTATTCTG
1 ATTCT-GTTACCTGATACTGATTCTGATTCTG
275936 TAATTGGTTA
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
30 16 0.20
31 62 0.77
32 2 0.03
ACGTcount: A:0.19, C:0.18, G:0.15, T:0.48
Consensus pattern (31 bp):
ATTCTGTTACCTGATACTGATTCTGATTCTG
Found at i:275863 original size:6 final size:6
Alignment explanation
Indices: 275823--275919 Score: 74
Period size: 6 Copynumber: 15.8 Consensus size: 6
275813 ATTCTGTTAC
* * * *
275823 CTGATA CTGGTT CTGATT TTGATT CTG-TT ACCTGATA CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT
* *
275872 CTGATT CTG-TCAC CTAATT CTGATT CTGATT CTGATT CT-AGTT CTGAT
1 CTGATT CTGAT--T CTGATT CTGATT CTGATT CTGATT CTGA-TT CTGAT
275920 AATGTTTCTT
Statistics
Matches: 72, Mismatches: 11, Indels: 16
0.73 0.11 0.16
Matches are distributed among these distances:
5 4 0.06
6 60 0.83
7 6 0.08
8 2 0.03
ACGTcount: A:0.19, C:0.19, G:0.16, T:0.46
Consensus pattern (6 bp):
CTGATT
Found at i:276902 original size:18 final size:17
Alignment explanation
Indices: 276860--276903 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 17
276850 CTAAATTGGA
276860 AAATAAAATTATTAAAAG
1 AAAT-AAATTATTAAAAG
*
276878 ATGATAAATTATTAAAAAG
1 A-AATAAATTATT-AAAAG
276897 AAATAAA
1 AAATAAA
276904 AATCATTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.27
Consensus pattern (17 bp):
AAATAAATTATTAAAAG
Found at i:283361 original size:18 final size:18
Alignment explanation
Indices: 283324--283362 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
283314 TTGGAAATTA
*
283324 AAATTATTAAAAGACGAT
1 AAATTATTAAAAGACAAT
283342 AAATTATTAAAAAGA-AAT
1 AAATTATT-AAAAGACAAT
283360 AAA
1 AAA
283363 AATCATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.64, C:0.03, G:0.08, T:0.26
Consensus pattern (18 bp):
AAATTATTAAAAGACAAT
Found at i:284321 original size:57 final size:58
Alignment explanation
Indices: 284187--284334 Score: 165
Period size: 57 Copynumber: 2.6 Consensus size: 58
284177 ATTGACCTCA
* * * *
284187 TTATAGAAAGGATTTAGCCCGGACGGGTAATCCTGATATAAGTCCTCTCGAGCATATG
1 TTATAGAAAGGATTTAGCCTGGACGGGTAATCCAGATACAAGTCCTCTAGAGCATATG
* ** * * *
284245 TTATGGATTGGATTTAGCCTAGACGGGTAATTCAGAT-CAAGCTCCT-TAGAGTATATG
1 TTATAGAAAGGATTTAGCCTGGACGGGTAATCCAGATACAAG-TCCTCTAGAGCATATG
* *
284302 TTATAAAAAGGATTTAGCCTGGACTGGTAATCC
1 TTATAGAAAGGATTTAGCCTGGACGGGTAATCC
284335 TGTTGTATAC
Statistics
Matches: 72, Mismatches: 17, Indels: 3
0.78 0.18 0.03
Matches are distributed among these distances:
57 38 0.53
58 34 0.47
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (58 bp):
TTATAGAAAGGATTTAGCCTGGACGGGTAATCCAGATACAAGTCCTCTAGAGCATATG
Found at i:286722 original size:29 final size:29
Alignment explanation
Indices: 286680--286736 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
286670 GTAGTTACTA
286680 AGCTTTATAGCTTACCCACCTCTCTTTTT
1 AGCTTTATAGCTTACCCACCTCTCTTTTT
*
286709 AGCTTTGTAGCTTACCCACCTCTCTTTT
1 AGCTTTATAGCTTACCCACCTCTCTTTT
286737 CCCACCTCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.16, C:0.32, G:0.09, T:0.44
Consensus pattern (29 bp):
AGCTTTATAGCTTACCCACCTCTCTTTTT
Found at i:289102 original size:19 final size:21
Alignment explanation
Indices: 289078--289116 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
289068 AGTCAGAGTC
*
289078 CTTCGG-AATACA-AACTCTA
1 CTTCGGTAACACAGAACTCTA
289097 CTTCGGTAACACAGAACTCT
1 CTTCGGTAACACAGAACTCT
289117 CTCACTGTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 5 0.29
21 6 0.35
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (21 bp):
CTTCGGTAACACAGAACTCTA
Found at i:293633 original size:31 final size:32
Alignment explanation
Indices: 293576--293637 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
293566 ACGAAGTCAC
* *
293576 CAGATATAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATAGATATTGTGGCGAAGCCACCAGAA
*
293608 CAGATATATATA-TGTGGCGAAGCCACCAGA
1 CAGATATAGATATTGTGGCGAAGCCACCAGA
293638 TTGTAACGAG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 16 0.59
32 11 0.41
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.21
Consensus pattern (32 bp):
CAGATATAGATATTGTGGCGAAGCCACCAGAA
Found at i:293658 original size:71 final size:69
Alignment explanation
Indices: 293583--293725 Score: 189
Period size: 69 Copynumber: 2.0 Consensus size: 69
293573 CACCAGATAT
* * * *
293583 AGATATTGTGGCTAGGCCACCAGAACAGATATATATATGTGGCGAA-GCCACCAGATTGTAACGA
1 AGATATTGTGACGAAGCCACCAGAACAGA-A-ATATATGTGGC-AAGGCCACCAGATTGCAACGA
*
293647 GGCTGTC
63 GGCTGCC
* *
293654 AGATATTGTGACGAAGTCACCAGAACAGAAATATATGTGGCAAGGCCACCAGATTGCAGCGAGGC
1 AGATATTGTGACGAAGCCACCAGAACAGAAATATATGTGGCAAGGCCACCAGATTGCAACGAGGC
293719 TGCC
66 TGCC
293723 AGA
1 AGA
293726 ACGCTTCCTC
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
68 2 0.03
69 36 0.56
70 1 0.02
71 25 0.39
ACGTcount: A:0.33, C:0.20, G:0.27, T:0.20
Consensus pattern (69 bp):
AGATATTGTGACGAAGCCACCAGAACAGAAATATATGTGGCAAGGCCACCAGATTGCAACGAGGC
TGCC
Found at i:299439 original size:90 final size:90
Alignment explanation
Indices: 299286--299497 Score: 248
Period size: 90 Copynumber: 2.4 Consensus size: 90
299276 CACCAAATAG
* * * * *
299286 GGTGCCAAAGCCATGTCCCAGACATGGTCTTACATGGAACTACACATCGATGTCATATCCCAGAT
1 GGTGCCGAAGCCATGTCCCAGACATGGTCTTAAAGGGAACTACACATCGATGCCATATCCCAGAC
*
299351 ATGGTCTTATAC-AAAGTCTCGAATC
66 ATGGTCTTATACGAAA-TCACGAATC
* * * *
299376 GGTGCCGACGCCATGTCCCAGACATGGTCTTAAACGGGACCT-CATATCGATGCCATGTCCCAGA
1 GGTGCCGAAGCCATGTCCCAGACATGGTCTTAAA-GGGAACTACACATCGATGCCATATCCCAGA
**
299440 CATGGTCTTATACGAAATCACTTATC
65 CATGGTCTTATACGAAATCACGAATC
* * * *
299466 GATGCCGAAGCCATATCCCTGATATGGTCTTA
1 GGTGCCGAAGCCATGTCCCAGACATGGTCTTA
299498 CACAGGATCG
Statistics
Matches: 103, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
90 95 0.92
91 8 0.08
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (90 bp):
GGTGCCGAAGCCATGTCCCAGACATGGTCTTAAAGGGAACTACACATCGATGCCATATCCCAGAC
ATGGTCTTATACGAAATCACGAATC
Found at i:299466 original size:42 final size:42
Alignment explanation
Indices: 299385--299471 Score: 120
Period size: 42 Copynumber: 2.1 Consensus size: 42
299375 CGGTGCCGAC
** *
299385 GCCATGTCCCAGACATGGTCTTAAACGGGACCTCATATCGAT
1 GCCATGTCCCAGACATGGTCTTAAACGAAACCACATATCGAT
* * *
299427 GCCATGTCCCAGACATGGTCTTATACGAAATCACTTATCGAT
1 GCCATGTCCCAGACATGGTCTTAAACGAAACCACATATCGAT
299469 GCC
1 GCC
299472 GAAGCCATAT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (42 bp):
GCCATGTCCCAGACATGGTCTTAAACGAAACCACATATCGAT
Found at i:299514 original size:48 final size:48
Alignment explanation
Indices: 299427--299554 Score: 132
Period size: 48 Copynumber: 2.7 Consensus size: 48
299417 TCATATCGAT
* * * * * *
299427 GCCATGTCCCAGACATGGTCTTATAC-GAAATCACTTATCGATGCCGAA
1 GCCATATCCCGGACATGGTCTTACACAG-GATCGCGTATCGATGCCGAA
* * *
299475 GCCATATCCCTGATATGGTCTTACACAGGATCGCGTATCGATGCCGAT
1 GCCATATCCCGGACATGGTCTTACACAGGATCGCGTATCGATGCCGAA
* * *
299523 GCTATGTCCCGGACATGGTCTTACACGGGATC
1 GCCATATCCCGGACATGGTCTTACACAGGATC
299555 TCGTTAATCA
Statistics
Matches: 66, Mismatches: 13, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
48 65 0.98
49 1 0.02
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (48 bp):
GCCATATCCCGGACATGGTCTTACACAGGATCGCGTATCGATGCCGAA
Found at i:300666 original size:51 final size:51
Alignment explanation
Indices: 300582--300678 Score: 160
Period size: 51 Copynumber: 1.9 Consensus size: 51
300572 CGGATACACG
* *
300582 GTGGCCTTCACATAGTACCACCCTTGTAGCCAAAGCTATTTTATTCACAAA
1 GTGGACTTCACATAGTACCACACTTGTAGCCAAAGCTATTTTATTCACAAA
300633 GTGGACTTCACATAGTACCACACTTGT-GTCCAAAGCTATTTTATTC
1 GTGGACTTCACATAGTACCACACTTGTAG-CCAAAGCTATTTTATTC
300679 CTAAGGTTCA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
50 1 0.02
51 42 0.98
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (51 bp):
GTGGACTTCACATAGTACCACACTTGTAGCCAAAGCTATTTTATTCACAAA
Found at i:300765 original size:28 final size:28
Alignment explanation
Indices: 300702--300796 Score: 117
Period size: 28 Copynumber: 3.5 Consensus size: 28
300692 GGGAAATTTC
300702 TCACTTAGCACAATGCCATGGACTTATT
1 TCACTTAGCACAATGCCATGGACTTATT
* * * *
300730 TTATTTAGCACATTGTCATGGACTTATT
1 TCACTTAGCACAATGCCATGGACTTATT
*
300758 TCACTTAG----ATGCCATGGTCTTATT
1 TCACTTAGCACAATGCCATGGACTTATT
300782 TCACTTAGCACAATG
1 TCACTTAGCACAATG
300797 TCATATTCTA
Statistics
Matches: 54, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
24 21 0.39
28 33 0.61
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (28 bp):
TCACTTAGCACAATGCCATGGACTTATT
Found at i:302492 original size:4 final size:4
Alignment explanation
Indices: 302483--302521 Score: 69
Period size: 4 Copynumber: 9.8 Consensus size: 4
302473 TGTTTTGGTA
*
302483 TATG TATG TATG TATG TACG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
302522 TAAGTTTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.26, C:0.03, G:0.23, T:0.49
Consensus pattern (4 bp):
TATG
Found at i:305000 original size:36 final size:36
Alignment explanation
Indices: 304953--305022 Score: 131
Period size: 36 Copynumber: 1.9 Consensus size: 36
304943 TGGTGAACAC
*
304953 TTAGTACCACCCATGTGACCTTGCCAGTTTATCTCA
1 TTAGTACCACCCATGTGACCTAGCCAGTTTATCTCA
304989 TTAGTACCACCCATGTGACCTAGCCAGTTTATCT
1 TTAGTACCACCCATGTGACCTAGCCAGTTTATCT
305023 TGTAGCTCTC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.23, C:0.30, G:0.14, T:0.33
Consensus pattern (36 bp):
TTAGTACCACCCATGTGACCTAGCCAGTTTATCTCA
Found at i:311984 original size:39 final size:39
Alignment explanation
Indices: 311940--312293 Score: 582
Period size: 39 Copynumber: 9.1 Consensus size: 39
311930 ATGCAAGACA
*
311940 CTGGAAATGTATCCGGGCTAAAGTCCCACAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
311979 CTGGAAATATATCCGGGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
312018 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
312057 CTGGAAAAGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
312096 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
312135 CTGGAAAAGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
312174 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
312213 CTGGAAAAGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
312252 CTGGAAATGTATCCGGGTTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
312291 CTG
1 CTG
312294 ATAATATAAT
Statistics
Matches: 290, Mismatches: 25, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 290 1.00
ACGTcount: A:0.22, C:0.25, G:0.30, T:0.23
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:312070 original size:78 final size:78
Alignment explanation
Indices: 311940--312293 Score: 665
Period size: 78 Copynumber: 4.5 Consensus size: 78
311930 ATGCAAGACA
* *
311940 CTGGAAATGTATCCGGGCTAAAGTCCCACAGGCTTCGTGCTGGAAATA-TATCCGGGCCAAAGTC
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTGCTGGAAA-AGTATCCGGGCCAAAGTC
312004 CCGCAGGCTTCGTG
65 CCGCAGGCTTCGTG
312018 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTGCTGGAAAAGTATCCGGGCCAAAGTCC
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTGCTGGAAAAGTATCCGGGCCAAAGTCC
312083 CGCAGGCTTCGTG
66 CGCAGGCTTCGTG
312096 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTGCTGGAAAAGTATCCGGGCCAAAGTCC
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTGCTGGAAAAGTATCCGGGCCAAAGTCC
312161 CGCAGGCTTCGTG
66 CGCAGGCTTCGTG
312174 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTGCTGGAAAAGTATCCGGGCCAAAGTCC
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTGCTGGAAAAGTATCCGGGCCAAAGTCC
312239 CGCAGGCTTCGTG
66 CGCAGGCTTCGTG
*
312252 CTGGAAATGTATCCGGGTTAAAGTCCCGCAGGCTTTGTGCTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTGCTG
312294 ATAATATAAT
Statistics
Matches: 272, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
77 1 0.00
78 271 1.00
ACGTcount: A:0.22, C:0.25, G:0.30, T:0.23
Consensus pattern (78 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTGCTGGAAAAGTATCCGGGCCAAAGTCC
CGCAGGCTTCGTG
Found at i:321525 original size:27 final size:27
Alignment explanation
Indices: 321470--321526 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
321460 CCTAACCCTT
* * *
321470 AACCTTAAACCTAAACCTCGAACCTCA
1 AACCTTAAACCAAAAACTCAAACCTCA
321497 AACCTTAAACCCAAAAACTCAAACC-CA
1 AACCTTAAA-CCAAAAACTCAAACCTCA
321524 AAC
1 AAC
321527 TCAAAACTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 14 0.54
28 12 0.46
ACGTcount: A:0.47, C:0.37, G:0.02, T:0.14
Consensus pattern (27 bp):
AACCTTAAACCAAAAACTCAAACCTCA
Found at i:321557 original size:13 final size:13
Alignment explanation
Indices: 321470--321554 Score: 55
Period size: 13 Copynumber: 6.5 Consensus size: 13
321460 CCTAACCCTT
*
321470 AACCTTAAACCTA
1 AACCTTAAACCCA
**
321483 AACCTCGAACCTCA
1 AACCTTAAACC-CA
321497 AACCTTAAACCCAA
1 AACCTTAAACCC-A
* *
321511 AAACTCAAACCCA
1 AACCTTAAACCCA
* * *
321524 AA-CTCAAAACTA
1 AACCTTAAACCCA
* *
321536 AATCTTGAACCCA
1 AACCTTAAACCCA
321549 AACCTT
1 AACCTT
321555 GAATATTGAA
Statistics
Matches: 55, Mismatches: 14, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
12 10 0.18
13 24 0.44
14 21 0.38
ACGTcount: A:0.46, C:0.34, G:0.02, T:0.18
Consensus pattern (13 bp):
AACCTTAAACCCA
Found at i:321579 original size:7 final size:7
Alignment explanation
Indices: 321569--321606 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
321559 ATTGAATTCC
321569 AAACTCT
1 AAACTCT
*
321576 AAACCCT
1 AAACTCT
321583 AAACTCT
1 AAACTCT
321590 AAACTCT
1 AAACTCT
*
321597 AAATTCT
1 AAACTCT
321604 AAA
1 AAA
321607 ATTAAACCCC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.26
Consensus pattern (7 bp):
AAACTCT
Found at i:323015 original size:22 final size:24
Alignment explanation
Indices: 322978--323021 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
322968 ATCCTTATTT
*
322978 AATTAGTATAAATATA-TATTTGA
1 AATTAGTAAAAATATATTATTTGA
323001 AATTA-TAAAAATATATTATTT
1 AATTAGTAAAAATATATTATTT
323022 AATAAATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (24 bp):
AATTAGTAAAAATATATTATTTGA
Found at i:324027 original size:19 final size:19
Alignment explanation
Indices: 323987--324036 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
323977 TAATAAAATA
* *
323987 TTTAATATTATATTTTTAT
1 TTTAATAATATATTTTAAT
324006 TTTAATAATA-ATTTTAAGT
1 TTTAATAATATATTTTAA-T
324025 TTTAAATAATAT
1 TTT-AATAATAT
324037 TCTTAATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 6 0.23
19 13 0.50
20 7 0.27
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (19 bp):
TTTAATAATATATTTTAAT
Found at i:324111 original size:24 final size:23
Alignment explanation
Indices: 324079--324136 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
324069 TATTTTAATA
324079 ATAAATATTTTATAGTATAAAAAT
1 ATAAATATTTTA-AGTATAAAAAT
* *
324103 ATAAATATTTTAATTATATAAAT
1 ATAAATATTTTAAGTATAAAAAT
*
324126 ATGAATATTTT
1 ATAAATATTTT
324137 TTTAAATCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
23 19 0.61
24 12 0.39
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (23 bp):
ATAAATATTTTAAGTATAAAAAT
Found at i:338777 original size:17 final size:18
Alignment explanation
Indices: 338755--338791 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
338745 TTTTGGGCCG
338755 TGTGGG-CCACACGGGCA
1 TGTGGGCCCACACGGGCA
*
338772 TGTGGGCCCACATGGGCA
1 TGTGGGCCCACACGGGCA
338790 TG
1 TG
338792 CAACATGGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.16, C:0.27, G:0.41, T:0.16
Consensus pattern (18 bp):
TGTGGGCCCACACGGGCA
Found at i:341169 original size:40 final size:40
Alignment explanation
Indices: 341114--341200 Score: 140
Period size: 40 Copynumber: 2.2 Consensus size: 40
341104 AGTAGGTGGC
*
341114 AATGCCATCGAAACTGGGTAAA-TCGGGATGATAGTTTAAA
1 AATGCCATCGAAACTGGGTAAACT-GGGATGATAATTTAAA
341154 AATGCCATCGAAACTGGGTAAACTGGGATGATAATTTAAA
1 AATGCCATCGAAACTGGGTAAACTGGGATGATAATTTAAA
*
341194 AAGGCCA
1 AATGCCA
341201 ACAAAATCAA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
40 43 0.98
41 1 0.02
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.23
Consensus pattern (40 bp):
AATGCCATCGAAACTGGGTAAACTGGGATGATAATTTAAA
Found at i:341849 original size:24 final size:24
Alignment explanation
Indices: 341795--341851 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
341785 CTTATGTGAG
341795 TAAGTATGCGAAACTTTAGGTAAA
1 TAAGTATGCGAAACTTTAGGTAAA
* * *
341819 TATGTATGCGAACAC-TTATGTACA
1 TAAGTATGCGAA-ACTTTAGGTAAA
341843 TAAGTATGC
1 TAAGTATGC
341852 AGACTCATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 26 0.93
25 2 0.07
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.32
Consensus pattern (24 bp):
TAAGTATGCGAAACTTTAGGTAAA
Found at i:342009 original size:13 final size:13
Alignment explanation
Indices: 341987--342035 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 13
341977 ATGTGATTCA
*
341987 ATATGAGAACCTT
1 ATATGTGAACCTT
342000 ATATGTGAACCTT
1 ATATGTGAACCTT
* ** *
342013 ATGTGCAAACCCT
1 ATATGTGAACCTT
342026 ATATGTGAAC
1 ATATGTGAAC
342036 ATATTATGTA
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (13 bp):
ATATGTGAACCTT
Found at i:348285 original size:27 final size:27
Alignment explanation
Indices: 348181--348286 Score: 140
Period size: 27 Copynumber: 3.9 Consensus size: 27
348171 TATATATACT
* * * * *
348181 CCACATAGGGGTAAAGCAGTCATCTTA
1 CCACATAAGGGCAAAACAATCATTTTA
*
348208 TCACATAAGGGCAAAACAATCATTTTA
1 CCACATAAGGGCAAAACAATCATTTTA
*
348235 CCACATAAGGGCAAAATAATCATTTTA
1 CCACATAAGGGCAAAACAATCATTTTA
*
348262 CCACATAAGGGAAAAACAATCATTT
1 CCACATAAGGGCAAAACAATCATTT
348287 GTCAATTTTA
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 69 1.00
ACGTcount: A:0.42, C:0.20, G:0.14, T:0.24
Consensus pattern (27 bp):
CCACATAAGGGCAAAACAATCATTTTA
Found at i:353162 original size:32 final size:31
Alignment explanation
Indices: 353119--353188 Score: 122
Period size: 32 Copynumber: 2.2 Consensus size: 31
353109 TATACCATTC
*
353119 AAAAAAAAAACTTGTTAGAACATATTTTCAT
1 AAAAAAAAAACTTGCTAGAACATATTTTCAT
353150 AAAAAAATAAACTTGCTAGAACATATTTTCAT
1 AAAAAAA-AAACTTGCTAGAACATATTTTCAT
353182 AAAAAAA
1 AAAAAAA
353189 CAAAATTCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
31 7 0.19
32 30 0.81
ACGTcount: A:0.56, C:0.10, G:0.06, T:0.29
Consensus pattern (31 bp):
AAAAAAAAAACTTGCTAGAACATATTTTCAT
Found at i:354295 original size:27 final size:27
Alignment explanation
Indices: 354247--354405 Score: 166
Period size: 27 Copynumber: 5.9 Consensus size: 27
354237 GCGAGGCTGC
* *
354247 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
354274 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
354300 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * * *
354327 CAGATAATTGTGGGATAGCCATCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
354354 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
354381 CCGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
354406 GACGCTTCCT
Statistics
Matches: 112, Mismatches: 12, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
26 10 0.09
27 97 0.87
28 5 0.04
ACGTcount: A:0.33, C:0.21, G:0.26, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:354407 original size:54 final size:54
Alignment explanation
Indices: 354265--354408 Score: 227
Period size: 54 Copynumber: 2.7 Consensus size: 54
354255 GTGACGAAGT
* *
354265 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
* *
354319 CACCAGATCAGATAATTGTGGGATAGCCATCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
*
354373 CACCAGATCCGATAATTGTGGCATAGCCACCAGGAC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
354409 GCTTCCTCTA
Statistics
Matches: 82, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
53 5 0.06
54 77 0.94
ACGTcount: A:0.33, C:0.23, G:0.26, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
Found at i:356028 original size:26 final size:26
Alignment explanation
Indices: 355997--356052 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
355987 TGAAATGCCC
355997 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
356023 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
356049 ATCA
1 ATCA
356053 ATTTGTATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.38, C:0.25, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:361282 original size:49 final size:49
Alignment explanation
Indices: 361227--361343 Score: 144
Period size: 49 Copynumber: 2.4 Consensus size: 49
361217 GTAAGACTTG
*
361227 TCTAGGACATGGCATCGACATCGATATATAAGAGCCAGCGCAAGACCTA
1 TCTAGGACATGGCATCGACATCGATATATAAAAGCCAGCGCAAGACCTA
* * * * * * * *
361276 TCTAGGACATGGCATTGGCGTCGATATATAAAAGTCAGTGTAGGACCTG
1 TCTAGGACATGGCATCGACATCGATATATAAAAGCCAGCGCAAGACCTA
*
361325 TCTAGTACATGGCATCGAC
1 TCTAGGACATGGCATCGAC
361344 TTTGATGTGC
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
49 56 1.00
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.23
Consensus pattern (49 bp):
TCTAGGACATGGCATCGACATCGATATATAAAAGCCAGCGCAAGACCTA
Found at i:367693 original size:48 final size:47
Alignment explanation
Indices: 367586--367797 Score: 214
Period size: 46 Copynumber: 4.5 Consensus size: 47
367576 TATGTGTACT
* * * *
367586 AGTGTAAGACATGTCTAGGACATGCATCGGCCAC-A-TTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATAT-AAAGCC
*
367632 AGTGTAAGACATGTCTGGGACATGCGTCGGCCTCGAGATATACAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATA-AAGCC
* * * * ** * *
367680 AGTGTAAGACATGTCTGAGACATACATCGGCATTGAGA-CGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATAAAGCC
* * * *
367726 AATGCAAGACATGTTTGGGACATGCATCGGCCTCGAGATATACAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATA-AAGCC
*
367774 AGTGTAAGACATGTCTAGGACATG
1 AGTGTAAGACATGTCTGGGACATG
367798 GCGTCAGCTT
Statistics
Matches: 133, Mismatches: 28, Indels: 8
0.79 0.17 0.05
Matches are distributed among these distances:
46 65 0.49
47 4 0.03
48 64 0.48
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATAAAGCC
Found at i:367839 original size:44 final size:45
Alignment explanation
Indices: 367774--367938 Score: 143
Period size: 49 Copynumber: 3.5 Consensus size: 45
367764 TATACAAGCT
* *
367774 AGTGTAAGACATGTCTAGGACATGGCGTCAGCTTGTTGTG-TGTC
1 AGTGTAAGACCTGTCTAGGACATGGCATCAGCTTGTTGTGATGTC
* ** * * *
367818 AGTGTAAGACCTGTCTGGGACATGGCATTGGCCTCGATATATGAAAGTC
1 AGTGTAAGACCTGTCTAGGACATGGCATCAG-CTTG-T-TGTG-ATGTC
* * * *
367867 AGTGTAAGACCTGTTTAGGACATGGCATCAACTTTGTTGTGCTAGCC
1 AGTGTAAGACCTGTCTAGGACATGGCATCAGC-TTGTTGTGAT-GTC
*
367914 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGACC-TGTCTAGGACATG
367939 ACGTTGGAAT
Statistics
Matches: 93, Mismatches: 20, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
44 26 0.28
45 3 0.03
46 1 0.01
47 19 0.20
48 13 0.14
49 31 0.33
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (45 bp):
AGTGTAAGACCTGTCTAGGACATGGCATCAGCTTGTTGTGATGTC
Found at i:367889 original size:93 final size:96
Alignment explanation
Indices: 367584--367938 Score: 300
Period size: 94 Copynumber: 3.8 Consensus size: 96
367574 GATATGTGTA
** **** * ** *
367584 CTAGTGTAAGACATGTCTAGGACAT-GCATCGGCCACATTATGAGAGCCAGTGTAAGACATGTCT
1 CTAGTGTAAGACATGTCTAGGACATGGCATCAACTTTGTTGTGCTAGCCAGTGTAAGACCTGTCT
*
367648 GGGACAT-GCGTCGGCCTCGAGATATACAAG
66 GGGACATGGCATCGGCCTCGAGATATACAAG
* * ** * * * ** * * * *
367678 CCAGTGTAAGACATGTCT-GAGACAT-ACATCGGCATTG-AGACGAGAGCTAATGCAAGACATGT
1 CTAGTGTAAGACATGTCTAG-GACATGGCATCAACTTTGTTG-TGCTAGCCAGTGTAAGACCTGT
*
367740 TTGGGACAT-GCATCGGCCTCGAGATATACAAG
64 CTGGGACATGGCATCGGCCTCGAGATATACAAG
* * *
367772 CTAGTGTAAGACATGTCTAGGACATGGCGTCAGC-TTGTTGTG-T-GTCAGTGTAAGACCTGTCT
1 CTAGTGTAAGACATGTCTAGGACATGGCATCAACTTTGTTGTGCTAGCCAGTGTAAGACCTGTCT
* *
367834 GGGACATGGCATTGGCCTCGATATATGA-AAG
66 GGGACATGGCATCGGCCTCGAGATAT-ACAAG
* *
367865 -TCAGTGTAAGACCTGTTTAGGACATGGCATCAACTTTGTTGTGCTAGCCAGTGTAAGACCATGT
1 CT-AGTGTAAGACATGTCTAGGACATGGCATCAACTTTGTTGTGCTAGCCAGTGTAAGACC-TGT
367929 CTGGGACATG
64 CTGGGACATG
367939 ACGTTGGAAT
Statistics
Matches: 215, Mismatches: 34, Indels: 21
0.80 0.13 0.08
Matches are distributed among these distances:
92 21 0.10
93 48 0.22
94 112 0.52
95 8 0.04
96 13 0.06
97 13 0.06
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.25
Consensus pattern (96 bp):
CTAGTGTAAGACATGTCTAGGACATGGCATCAACTTTGTTGTGCTAGCCAGTGTAAGACCTGTCT
GGGACATGGCATCGGCCTCGAGATATACAAG
Found at i:371189 original size:19 final size:19
Alignment explanation
Indices: 371165--371206 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
371155 TTGTTTTCCT
*
371165 TTTTGATTCGCAGCCTCCC
1 TTTTGATTCACAGCCTCCC
371184 TTTTGATTCACAGCCTCCC
1 TTTTGATTCACAGCCTCCC
371203 TTTT
1 TTTT
371207 AATCTTGTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.12, C:0.33, G:0.12, T:0.43
Consensus pattern (19 bp):
TTTTGATTCACAGCCTCCC
Found at i:372593 original size:25 final size:25
Alignment explanation
Indices: 372552--372618 Score: 66
Period size: 26 Copynumber: 2.7 Consensus size: 25
372542 ACACAATACC
* *
372552 ACAAAATAGGACAAT-AATAAGGATT
1 ACAAAATA-AACAATAAATAAGAATT
*
372577 ACAAAATAAACAGATAAATAATAATT
1 ACAAAATAAACA-ATAAATAAGAATT
*
372603 GCAAAATAAA-AATAAA
1 ACAAAATAAACAATAAA
372619 AATGTACCTT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
24 8 0.22
25 11 0.31
26 17 0.47
ACGTcount: A:0.64, C:0.07, G:0.09, T:0.19
Consensus pattern (25 bp):
ACAAAATAAACAATAAATAAGAATT
Found at i:372704 original size:118 final size:112
Alignment explanation
Indices: 372549--372901 Score: 378
Period size: 117 Copynumber: 3.1 Consensus size: 112
372539 ACAACACAAT
*
372549 ACCACAAAATAGGACAATAATAAGGATTACAAAATAAACAGATAAATAATAATTGCAAAATAAAA
1 ACCACAAAATAGGAAAATAATAAGGATTAC-AAATAAACA-ATAAATAATAATTGCAAAA-AAAA
372614 ATAAAAATGTACCTTTAAACCTTAATATGCTACTGCCTCCTCTCTTTCCAAA
63 ATAAAAATGTACCTTTAAACCTTAATATG-T-CTGCCTCCTCTCTTTCCAAA
*
372666 ACCACAAAATAGGATAAATAATAAGGATTACAAGATAAACAAATAAATAATAATTACAAAAAAAA
1 ACCACAAAATAGGA-AAATAATAAGGATTACAA-ATAAAC-AATAAATAATAATTGCAAAAAAAA
* * ** *
372731 TTAAAAATGTATCACTAAACCTTAATATG-CTGCCTCCTCTTCTTT-TAAA
63 ATAAAAATGTACCTTTAAACCTTAATATGTCTGCCTCCTC-TCTTTCCAAA
* * * *
372780 ACCGCAAAATAGGGCAAATAATAAGGATTACAAACAAACAA-AAAAAATAA--G-AATTAAAAAA
1 ACCACAAAATA-GGAAAATAATAAGGATTACAAATAAACAATAAATAATAATTGCAA--AAAAAA
* * * *
372841 CTAAAAATGTACCTTGAAACCCTTATATGATGT-TGCCTCCTCTCCTTCCAAC
63 ATAAAAATGTACCTTTAAA-CCTTA-AT-ATGTCTGCCTCCTCTCTTTCCAAA
*
372893 ACTACAAAA
1 ACCACAAAA
372902 CCTTCTTCTC
Statistics
Matches: 202, Mismatches: 22, Indels: 28
0.80 0.09 0.11
Matches are distributed among these distances:
108 2 0.01
110 20 0.10
111 13 0.06
112 8 0.04
113 26 0.13
114 41 0.20
115 7 0.03
117 45 0.22
118 39 0.19
119 1 0.00
ACGTcount: A:0.49, C:0.18, G:0.08, T:0.25
Consensus pattern (112 bp):
ACCACAAAATAGGAAAATAATAAGGATTACAAATAAACAATAAATAATAATTGCAAAAAAAAATA
AAAATGTACCTTTAAACCTTAATATGTCTGCCTCCTCTCTTTCCAAA
Found at i:372799 original size:114 final size:114
Alignment explanation
Indices: 372549--372840 Score: 376
Period size: 114 Copynumber: 2.5 Consensus size: 114
372539 ACAACACAAT
* *
372549 ACCACAAAATAGGAC-AATAATAAGGATTACAAAATAAACAGATAAATAATAATTGCAAAATAAA
1 ACCACAAAATAGGACAAATAATAAGGATTAC-AAATAAACAAATAAATAATAATTACAAAA-AAA
**
372613 AATAAAAATGTACCTTTAAACCTTAATATGCTACTGCCTCCTCTCTTTCCAAA
64 AATAAAAATGTACCACTAAACCTTAATATG--ACTGCCTCCTCTCTTTCCAAA
*
372666 ACCACAAAATAGGATAAATAATAAGGATTACAAGATAAACAAATAAATAATAATTACAAAAAAAA
1 ACCACAAAATAGGACAAATAATAAGGATTACAA-ATAAACAAATAAATAATAATTACAAAAAAAA
* * *
372731 TTAAAAATGTATCACTAAACCTTAATATG-CTGCCTCCTCTTCTTT-TAAA
65 ATAAAAATGTACCACTAAACCTTAATATGACTGCCTCCTC-TCTTTCCAAA
* * * * *
372780 ACCGCAAAATAGGGCAAATAATAAGGATTACAAACAAACAAAAAAAATAAGAATTA-AAAAA
1 ACCACAAAATAGGACAAATAATAAGGATTACAAATAAAC-AAATAAATAATAATTACAAAAA
372841 CTAAAAATGT
Statistics
Matches: 157, Mismatches: 14, Indels: 12
0.86 0.08 0.07
Matches are distributed among these distances:
113 10 0.06
114 57 0.36
115 5 0.03
117 45 0.29
118 40 0.25
ACGTcount: A:0.53, C:0.15, G:0.08, T:0.24
Consensus pattern (114 bp):
ACCACAAAATAGGACAAATAATAAGGATTACAAATAAACAAATAAATAATAATTACAAAAAAAAA
TAAAAATGTACCACTAAACCTTAATATGACTGCCTCCTCTCTTTCCAAA
Found at i:378145 original size:85 final size:85
Alignment explanation
Indices: 378002--378174 Score: 337
Period size: 85 Copynumber: 2.0 Consensus size: 85
377992 TGTATATATA
378002 TGTATATACATGCTTTTGTGTTATTAATTGGTTAGTCATCTAGGTTTTGGGATAATGTATGCCAT
1 TGTATATACATGCTTTTGTGTTATTAATTGGTTAGTCATCTAGGTTTTGGGATAATGTATGCCAT
378067 GAGTTTGATTGTTTTGAATG
66 GAGTTTGATTGTTTTGAATG
*
378087 TGTATATACATGCTTTTGTGTTATTAATTGGTTAGTCATCTAGGTTTTGGGATGATGTATGCCAT
1 TGTATATACATGCTTTTGTGTTATTAATTGGTTAGTCATCTAGGTTTTGGGATAATGTATGCCAT
378152 GAGTTTGATTGTTTTGAATG
66 GAGTTTGATTGTTTTGAATG
378172 TGT
1 TGT
378175 TTCATGAAGG
Statistics
Matches: 87, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 87 1.00
ACGTcount: A:0.21, C:0.07, G:0.24, T:0.47
Consensus pattern (85 bp):
TGTATATACATGCTTTTGTGTTATTAATTGGTTAGTCATCTAGGTTTTGGGATAATGTATGCCAT
GAGTTTGATTGTTTTGAATG
Found at i:382536 original size:22 final size:23
Alignment explanation
Indices: 382497--382539 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
382487 TAATTGGGAG
*
382497 AAATGACCAATTTGCCCCTAACA
1 AAATGACCAATTTACCCCTAACA
382520 AAATGACC-ATTTACCCCTAA
1 AAATGACCAATTTACCCCTAA
382540 GCCCGAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.40, C:0.30, G:0.07, T:0.23
Consensus pattern (23 bp):
AAATGACCAATTTACCCCTAACA
Found at i:385453 original size:11 final size:11
Alignment explanation
Indices: 385439--385494 Score: 58
Period size: 11 Copynumber: 4.9 Consensus size: 11
385429 AGATAAATAT
*
385439 TATTTTACTAA
1 TATTTTATTAA
*
385450 TATTTTAATAATA
1 TATTTT-ATTA-A
*
385463 TATTTTATTAT
1 TATTTTATTAA
*
385474 TATTTTATTAT
1 TATTTTATTAA
385485 TATTTTATTA
1 TATTTTATTA
385495 GTATATAAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
11 27 0.69
12 5 0.13
13 7 0.18
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:385467 original size:24 final size:25
Alignment explanation
Indices: 385434--385491 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 25
385424 TAATTAGATA
385434 AATATTATTTTACTAATATTTTAAT
1 AATATTATTTTACTAATATTTTAAT
* *
385459 AATA-TATTTTATTATTATTTT-AT
1 AATATTATTTTACTAATATTTTAAT
385482 --TATTATTTTA
1 AATATTATTTTA
385492 TTAGTATATA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
21 2 0.07
22 7 0.23
23 2 0.07
24 15 0.50
25 4 0.13
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (25 bp):
AATATTATTTTACTAATATTTTAAT
Done.