Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1045
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: 88709
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Found at i:3314 original size:42 final size:41
Alignment explanation
Indices: 3247--3383 Score: 138
Period size: 42 Copynumber: 3.3 Consensus size: 41
3237 GTGTGATTTT
*
3247 GTGTAAGACCA-GTTTTGAGAC-TTGGCATCGATATGAGACTAC
1 GTGTAAGACCATG-TCTG-GACATTGGCATCGATATGAGA-TAC
*
3289 GTGTAAGACCATGTCTGGACATTGGCATCGTATAT-A-ATTC
1 GTGTAAGACCATGTCTGGACATTGGCATCG-ATATGAGATAC
* * *
3329 GTGTAAGACCCTGTCTGGGACAATGGCATCGATATGTGATAGC
1 GTGTAAGACCATGTCT-GGACATTGGCATCGATATGAGATA-C
*
3372 ATGTAAGACCAT
1 GTGTAAGACCAT
3384 ATCCGGGATA
Statistics
Matches: 80, Mismatches: 8, Indels: 13
0.79 0.08 0.13
Matches are distributed among these distances:
40 21 0.26
41 17 0.21
42 26 0.32
43 16 0.20
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (41 bp):
GTGTAAGACCATGTCTGGACATTGGCATCGATATGAGATAC
Found at i:3344 original size:40 final size:40
Alignment explanation
Indices: 3269--3363 Score: 120
Period size: 40 Copynumber: 2.3 Consensus size: 40
3259 TTTTGAGACT
* *
3269 TGGCATCGATATGAGACTACGTGTAAGACCATGTCT-GGACAT
1 TGGCATCGATAT-A-A-TTCGTGTAAGACCATGTCTGGGACAA
*
3311 TGGCATCGTATATAATTCGTGTAAGACCCTGTCTGGGACAA
1 TGGCATCG-ATATAATTCGTGTAAGACCATGTCTGGGACAA
3352 TGGCATCGATAT
1 TGGCATCGATAT
3364 GTGATAGCAT
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
40 21 0.44
41 14 0.29
42 9 0.19
43 4 0.08
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.28
Consensus pattern (40 bp):
TGGCATCGATATAATTCGTGTAAGACCATGTCTGGGACAA
Found at i:5359 original size:27 final size:27
Alignment explanation
Indices: 5311--5489 Score: 168
Period size: 28 Copynumber: 6.6 Consensus size: 27
5301 ATATTAAGTC
* *
5311 CGCACACTCAGTTGCTATATAATCAACT
1 CGCACACTTAG-TGCTACATAATCAACT
5339 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
*
5367 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
** * *
5394 CGCACACTTAGTGCCGCATGGATCACATT
1 CGCACACTTAGTGCTACAT-AATCA-ACT
* *
5423 CGCACACTTA--GC-ATCATATTC-ATT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
5447 CGCACACTTAAGTGCAACATAGTCAAAT
1 CGCACACTT-AGTGCTACATAATCAACT
5475 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
5490 GTACAATTTA
Statistics
Matches: 128, Mismatches: 14, Indels: 19
0.80 0.09 0.12
Matches are distributed among these distances:
24 12 0.09
25 1 0.01
26 2 0.02
27 50 0.39
28 51 0.40
29 12 0.09
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:10873 original size:27 final size:27
Alignment explanation
Indices: 10856--11033 Score: 133
Period size: 27 Copynumber: 6.6 Consensus size: 27
10846 ATATTAAGTC
10856 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* *
10883 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * *
10911 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* *** ** *
10938 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
* * **
10965 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTCAGTGCTAT-ATAATCAACT
* * * * *
10992 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTCAGTGCTATATAATCAACT
*
11019 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
11034 GTACAATTTA
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 104 0.79
28 27 0.21
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:10995 original size:54 final size:54
Alignment explanation
Indices: 10856--11032 Score: 214
Period size: 54 Copynumber: 3.3 Consensus size: 54
10846 ATATTAAGTC
* * *
10856 CGCACACTCAGTGCTAT-ATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGC-ATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAA-T
* ** * *
10911 CGCACACTTAGTGC-TACATAGTCAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCAT-CATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
* **
10965 CGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
11019 CGCACACTTAGTGC
1 CGCACACTTAGTGC
11033 TGTACAATTT
Statistics
Matches: 105, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
53 1 0.01
54 60 0.57
55 44 0.42
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:11022 original size:81 final size:82
Alignment explanation
Indices: 10877--11032 Score: 235
Period size: 81 Copynumber: 1.9 Consensus size: 82
10867 TGCTATATAA
* *
10877 TCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTACATAGTCAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGCA
10942 CACTTAGTGCCGCATGG
66 CACTTAGTGCCGCATGG
* * **
10959 TCAATTCGCACACTTAGTGC-ATCATATTC-ATTTCGCACACTTAGTGCAACATAGTCAAATCGC
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGC
11022 ACACTTAGTGC
65 ACACTTAGTGC
11033 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 42 0.63
82 25 0.37
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (82 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGCA
CACTTAGTGCCGCATGG
Found at i:13033 original size:15 final size:15
Alignment explanation
Indices: 13000--13029 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
12990 TATATTTTGT
13000 ATTTATTATGTGTGA
1 ATTTATTATGTGTGA
13015 ATTTA-TATGTGTGA
1 ATTTATTATGTGTGA
13029 A
1 A
13030 ATTTTCGTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (15 bp):
ATTTATTATGTGTGA
Found at i:20554 original size:19 final size:19
Alignment explanation
Indices: 20477--20546 Score: 79
Period size: 20 Copynumber: 3.7 Consensus size: 19
20467 CAATCATATA
*
20477 AACAGTAATTCATTCG-AT
1 AACAGTAATTCATCCGTAT
*
20495 AACAGTAACTCATCCGTAT
1 AACAGTAATTCATCCGTAT
* * *
20514 AAACAATACTTCATCCCTAT
1 -AACAGTAATTCATCCGTAT
20534 AACAGTAATTCAT
1 AACAGTAATTCAT
20547 TTGTATAAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
18 14 0.33
19 13 0.31
20 15 0.36
ACGTcount: A:0.40, C:0.23, G:0.07, T:0.30
Consensus pattern (19 bp):
AACAGTAATTCATCCGTAT
Found at i:31916 original size:42 final size:44
Alignment explanation
Indices: 31813--31930 Score: 134
Period size: 44 Copynumber: 2.7 Consensus size: 44
31803 TGATATCGTG
* * *
31813 TAAGACCATGTCTGGGACATCGGCATCGATTTCAGATTTACGTG
1 TAAGACCATGTCTGGGACATTGGCATCGATATCAGATTTACGTA
*
31857 TAAGACCATGTCTGGGACATTGGCATCGTATAT-A-ATTTTC-TA
1 TAAGACCATGTCTGGGACATTGGCATCG-ATATCAGATTTACGTA
* * * *
31899 TAAGACCCTATCTGGGACAGTGGCGTCGATAT
1 TAAGACCATGTCTGGGACATTGGCATCGATAT
31931 TTGATAACTT
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
41 4 0.06
42 25 0.38
43 5 0.08
44 28 0.43
45 3 0.05
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (44 bp):
TAAGACCATGTCTGGGACATTGGCATCGATATCAGATTTACGTA
Found at i:46667 original size:47 final size:47
Alignment explanation
Indices: 46614--46805 Score: 285
Period size: 47 Copynumber: 4.1 Consensus size: 47
46604 TTAGGATTTT
* *
46614 AATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* * *
46661 AATGTGATGAATGTGAACATGCGTATGTGCGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* *
46708 AATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCT
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* * * *
46755 GATGTGATGAATGTGAACATGTATATATGTGGTAAGGCCGAATGGCT
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
46802 AATG
1 AATG
46806 CGAAATGTGT
Statistics
Matches: 135, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 135 1.00
ACGTcount: A:0.32, C:0.11, G:0.31, T:0.26
Consensus pattern (47 bp):
AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
Found at i:46915 original size:46 final size:46
Alignment explanation
Indices: 46779--46915 Score: 202
Period size: 46 Copynumber: 3.0 Consensus size: 46
46769 GAACATGTAT
* *
46779 ATATGTGGTAAGGCCGAATGGCTAATGCGAAATGTGTATGAGATAG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * *
46825 ATATGAGATAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * *
46871 ATATGTGGTAAAGCCAAATGGCTAATGCGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATG
46916 TGTATATATA
Statistics
Matches: 80, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 80 1.00
ACGTcount: A:0.35, C:0.09, G:0.31, T:0.25
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:54104 original size:44 final size:42
Alignment explanation
Indices: 54032--54146 Score: 115
Period size: 42 Copynumber: 2.7 Consensus size: 42
54022 TGTGATATCG
* * ** *
54032 TGTAAGACCATGTCTAGAACATCAGCATCG-ATTTGAGATTTACA
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATAT-A-ATTT-CA
*
54076 TGTAAGACCATTTCTGGGACATTGGCATCGTATATAATTTCA
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATATAATTTCA
* * *
54118 TATAAGACCCTGTCTGGGACAGTGGCATC
1 TGTAAGACCATGTCTGGGACATTGGCATC
54147 AATATTTGAA
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
42 27 0.45
43 4 0.07
44 26 0.43
45 3 0.05
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTATATAATTTCA
Found at i:55964 original size:22 final size:23
Alignment explanation
Indices: 55939--55984 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
55929 CAACCAAACC
55939 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
55961 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
55984 A
1 A
55985 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:55990 original size:23 final size:23
Alignment explanation
Indices: 55946--55990 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
55936 ACCAATTCAA
*
55946 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
55969 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
55991 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:75391 original size:43 final size:42
Alignment explanation
Indices: 75306--75468 Score: 172
Period size: 43 Copynumber: 3.8 Consensus size: 42
75296 GTGATATTCA
* * *
75306 GGCTTC-GGCCTAGCAAGCTTTAA-GCTGGTGAATAATATTATCG
1 GGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAT-A-A-TATCG
75349 GGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAGATAATATCG
1 GGCTTCGGGCCTAGCAGGCTATAATGCCGGTGA-ATAATATCG
* * *
75392 GGCTTCGGGCCTAGCAGGCTATAATTCAGGTGCAATGATATCG
1 GGCTTCGGGCCTAGCAGGCTATAATGCCGGTG-AATAATATCG
**
75435 GGCTTCAAGCCTAGCAGG-TGA-AATGCCGGTGAAT
1 GGCTTCGGGCCTAGCAGGCT-ATAATGCCGGTGAAT
75469 GAGTTCAGAC
Statistics
Matches: 105, Mismatches: 10, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
41 3 0.03
42 9 0.09
43 66 0.63
44 17 0.16
45 8 0.08
46 2 0.02
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (42 bp):
GGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAATAATATCG
Found at i:75547 original size:40 final size:40
Alignment explanation
Indices: 75444--75548 Score: 95
Period size: 40 Copynumber: 2.6 Consensus size: 40
75434 GGGCTTCAAG
* *
75444 CCTAGCAGG-TGAAATGCCGGTGAATGAGTTCAGACTTAAAG
1 CCTAGCAGGCT-AAATGCCGGTG-ATGAATTCAGACTTAAAA
* *** * * **
75485 TCTAGCAGGCTTTGTGCTGGTGATGAATTCGGGTTTAAAA
1 CCTAGCAGGCTAAATGCCGGTGATGAATTCAGACTTAAAA
75525 CCTAGCAGGCTAAATGCCGGTGAT
1 CCTAGCAGGCTAAATGCCGGTGAT
75549 TTGATAAAAG
Statistics
Matches: 48, Mismatches: 15, Indels: 3
0.73 0.23 0.05
Matches are distributed among these distances:
40 32 0.67
41 15 0.31
42 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.27
Consensus pattern (40 bp):
CCTAGCAGGCTAAATGCCGGTGATGAATTCAGACTTAAAA
Found at i:80969 original size:14 final size:14
Alignment explanation
Indices: 80950--80976 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
80940 TATCAAAGCA
80950 ATAATTAAGAACAC
1 ATAATTAAGAACAC
80964 ATAATTAAGAACA
1 ATAATTAAGAACA
80977 AGAAAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.11, G:0.07, T:0.22
Consensus pattern (14 bp):
ATAATTAAGAACAC
Found at i:81552 original size:21 final size:21
Alignment explanation
Indices: 81508--81551 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
81498 TTCTTCTCGA
*
81508 TTTGG-TCTATTTTGTCCCTT
1 TTTGGCTCTTTTTTGTCCCTT
81528 TTTGGCTCTTTTTTGTCTCCTT
1 TTTGGCTCTTTTTTGTC-CCTT
81550 TT
1 TT
81552 GACTCTTGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.24
21 10 0.48
22 6 0.29
ACGTcount: A:0.02, C:0.20, G:0.14, T:0.64
Consensus pattern (21 bp):
TTTGGCTCTTTTTTGTCCCTT
Found at i:81557 original size:21 final size:21
Alignment explanation
Indices: 81517--81558 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
81507 ATTTGGTCTA
*
81517 TTTTGTCCCTTTTTGGCTCTT
1 TTTTGTCCCTTTTTGACTCTT
81538 TTTTGTCTCC-TTTTGACTCTT
1 TTTTGTC-CCTTTTTGACTCTT
81559 GGTGCTCTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.02, C:0.24, G:0.12, T:0.62
Consensus pattern (21 bp):
TTTTGTCCCTTTTTGACTCTT
Found at i:84806 original size:37 final size:37
Alignment explanation
Indices: 84745--84823 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
84735 TTATTACGAA
* * *
84745 GTCTTACCCGAACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGAACAAAATCCCCACACGAAGTCATCGG
* *
84782 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGAACAAAATCCCCACACGAAGTCATCGG
84819 GTCTT
1 GTCTT
84824 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGAACAAAATCCCCACACGAAGTCATCGG
Found at i:85068 original size:46 final size:47
Alignment explanation
Indices: 84939--85360 Score: 656
Period size: 47 Copynumber: 9.1 Consensus size: 47
84929 ATCCTTCGGA
* * * * * * *
84939 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
84986 CCTGTCACATATATACACTTTCACATTCA-CACATCGGCCATTA-GC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
85031 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA-GC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
85077 CTTATTACATATATACACTTTCACATTCATCACATCGG-CATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
85123 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
85170 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATT-GGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
85216 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
85263 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
85310 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
85357 CTTA
1 CTTA
85361 CTATCATTTC
Statistics
Matches: 354, Mismatches: 17, Indels: 8
0.93 0.04 0.02
Matches are distributed among these distances:
45 34 0.10
46 148 0.42
47 172 0.49
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:85222 original size:93 final size:94
Alignment explanation
Indices: 84939--85360 Score: 656
Period size: 93 Copynumber: 4.5 Consensus size: 94
84929 ATCCTTCGGA
* * * * * * * * * *
84939 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACAC
85004 TTTCACATTCA-CACATCGGCCATTA-GC
66 TTTCACATTCATCACATCGGCCATTAGGC
* *
85031 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA-GCCTTATTACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACAC
85095 TTTCACATTCATCACATCGG-CATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
85123 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACAC
85188 TTTCACATTCATCACATCGGCCATT-GGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
85216 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACAC
*
85281 TTTCACATTCATCACATCGGCTATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* *
85310 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
85361 CTATCATTTC
Statistics
Matches: 308, Mismatches: 17, Indels: 8
0.92 0.05 0.02
Matches are distributed among these distances:
91 33 0.11
92 90 0.29
93 128 0.42
94 57 0.19
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Done.