Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold3322
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: 41290
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Found at i:886 original size:40 final size:39
Alignment explanation
Indices: 799--979 Score: 197
Period size: 40 Copynumber: 4.6 Consensus size: 39
789 TCCTCGTTCA
* *
799 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACT--CAC
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
* *
836 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
* *
875 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
* * * * *
915 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCAC
*
956 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
980 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
37 30 0.25
39 6 0.05
40 78 0.64
41 8 0.07
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
Found at i:988 original size:41 final size:41
Alignment explanation
Indices: 911--988 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
901 TTAGTATCTC
* * *
911 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
952 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
989 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:8752 original size:40 final size:39
Alignment explanation
Indices: 8665--8845 Score: 188
Period size: 40 Copynumber: 4.6 Consensus size: 39
8655 TCCTCGTTCA
* *
8665 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACT--CAC
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
* *
8702 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
* *
8741 GAATGCCTTCGGGACTTAACCCGGATTTAGTACCTCGCAC
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
* * * * * *
8781 AAAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCAC
*
8822 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
8846 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
37 30 0.25
39 6 0.05
40 77 0.64
41 8 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
Found at i:8854 original size:41 final size:41
Alignment explanation
Indices: 8777--8854 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
8767 TTAGTACCTC
* * *
8777 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
8818 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
8855 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:15974 original size:16 final size:15
Alignment explanation
Indices: 15953--15990 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
15943 TCTCTTGCAT
*
15953 TTTAGATTAACATGGA
1 TTTAGATTAAAAT-GA
15969 TTTAGATTAAAATGA
1 TTTAGATTAAAATGA
15984 TTT-GATT
1 TTTAGATT
15991 TCATGTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 4 0.19
15 5 0.24
16 12 0.57
ACGTcount: A:0.37, C:0.03, G:0.16, T:0.45
Consensus pattern (15 bp):
TTTAGATTAAAATGA
Found at i:18478 original size:4 final size:5
Alignment explanation
Indices: 18453--18485 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
18443 TTTTAATAAC
18453 AAAAT AAAAT AAAAT AAAAT -AAAT -AAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
18486 TCAAGAGATC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 8 0.30
5 19 0.70
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:22597 original size:47 final size:47
Alignment explanation
Indices: 22439--22866 Score: 678
Period size: 47 Copynumber: 9.1 Consensus size: 47
22429 GAAATGATAG
*
22439 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
22486 TAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* *
22534 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
22581 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
22628 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
22675 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
22722 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
22769 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * * * *
22816 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
22863 TAAG
1 TAAG
22867 TCCCGAAGGG
Statistics
Matches: 361, Mismatches: 17, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
46 24 0.07
47 291 0.81
48 22 0.06
49 24 0.07
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:24975 original size:43 final size:43
Alignment explanation
Indices: 24927--25025 Score: 189
Period size: 43 Copynumber: 2.3 Consensus size: 43
24917 TTGGTTTTCA
24927 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
24970 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
*
25013 GTACTAAGTGTGC
1 GCACTAAGTGTGC
25026 AGGCTTGAAA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.23, C:0.14, G:0.34, T:0.28
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:25050 original size:29 final size:29
Alignment explanation
Indices: 25015--25084 Score: 99
Period size: 29 Copynumber: 2.4 Consensus size: 29
25005 TGAGATTGGT
*
25015 ACTAAGTGTGC-AGGCTTGAAA-TGCATGGC
1 ACTAAGTGTGCGA-GCTT-AAAGTACATGGC
25044 ACTAAGTGTGCGAGCTTAAAGTACATGGC
1 ACTAAGTGTGCGAGCTTAAAGTACATGGC
25073 ACTAAGTGTGCG
1 ACTAAGTGTGCG
25085 TGGTTGATTA
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
28 3 0.08
29 34 0.89
30 1 0.03
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (29 bp):
ACTAAGTGTGCGAGCTTAAAGTACATGGC
Found at i:25531 original size:40 final size:40
Alignment explanation
Indices: 25474--25706 Score: 348
Period size: 40 Copynumber: 5.9 Consensus size: 40
25464 GAGTTACTAA
*
25474 ATCCGGGCTAAGT-CCGAAGAGCATTCATGCTAGCGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
25513 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* * *
25553 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
25593 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* *
25633 ATCCGGGCTAAG---CGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* * * *
25670 ATCCGTGCTAAATCCCGAAGAGCAATCATGCTGGTGA
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
25707 CGTGTATTCG
Statistics
Matches: 176, Mismatches: 14, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
37 33 0.19
39 13 0.07
40 130 0.74
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
Found at i:25596 original size:80 final size:79
Alignment explanation
Indices: 25395--25706 Score: 384
Period size: 80 Copynumber: 3.9 Consensus size: 79
25385 TCGAATGATG
* * *
25395 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAG-GC
1 TCCGGGCTAAGT-CCGAAGAGCATTCGTGCT-AGTGA-TATATCCGGGCTAAG-TCCCGAAGAGC
** * * **
25456 ATTGGTGCGAGTTACTAAA
62 ATTCATGCTAGTGA-TGTA
* * *
25475 TCCGGGCTAAGTCCGAAGAGCATTCATGCTAGCGATGTATCCGGGCTAAGTCCCGAAGAGCATTC
1 TCCGGGCTAAGTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTC
25540 ATGCTAGTGATGTA
66 ATGCTAGTGATGTA
25554 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATT
1 TCCGGGCTAAG-TCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATT
25619 CATGCTAGTGATGTA
65 CATGCTAGTGATGTA
* * *
25634 TCCGGGCTAAG--CGAAGAGCATTCGTGCTAGTGATATATCCGTGCTAAATCCCGAAGAGCAATC
1 TCCGGGCTAAGTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTC
*
25697 ATGCTGGTGA
66 ATGCTAGTGA
25707 CGTGTATTCG
Statistics
Matches: 208, Mismatches: 19, Indels: 13
0.87 0.08 0.05
Matches are distributed among these distances:
77 58 0.28
78 1 0.00
79 37 0.18
80 106 0.51
81 6 0.03
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAAGTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTC
ATGCTAGTGATGTA
Found at i:30351 original size:39 final size:41
Alignment explanation
Indices: 30306--30453 Score: 164
Period size: 39 Copynumber: 3.7 Consensus size: 41
30296 TAGCCGGTAC
* * *
30306 CACTAGCATGAATGTTC-TCGGGACTTAGCGCGGATATA-T
1 CACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATT
* *
30345 CACTAGCACGAATGCTCTTC-GAACTTAGCCCGGATACATT
1 CACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATT
*
30385 CACTAGCATGAATGCTCTTCGGGACTTTG-CC-GATACA-T
1 CACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATT
*
30423 CGCTAGCATCGAAATGCCTCTTCGGGACTTA
1 CACTAGCAT-G-AATG-CTCTTCGGGACTTA
30454 CCGGATTTAG
Statistics
Matches: 93, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
38 9 0.10
39 37 0.40
40 28 0.30
41 19 0.20
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (41 bp):
CACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATT
Found at i:30398 original size:40 final size:39
Alignment explanation
Indices: 30229--30446 Score: 137
Period size: 39 Copynumber: 5.4 Consensus size: 39
30219 CAACGGCACC
* * * *
30229 AGCATGATTGCTCTTCGGGATTTAGCACGGATAATCTATCACT
1 AGCATGAATGCTCTTC-GAACTTAGCCCGGAT-A-C-ATCACT
*
30272 AGCACGGAATGCTCTTCGAA-TAAATAG-CCGG-TAC--CACT
1 AGCA-TGAATGCTCTTCGAACT---TAGCCCGGATACATCACT
* * * *
30310 AGCATGAATGTTC-TCGGGACTTAGCGCGGATATATCACT
1 AGCATGAATGCTCTTC-GAACTTAGCCCGGATACATCACT
*
30349 AGCACGAATGCTCTTCGAACTTAGCCCGGATACATTCACT
1 AGCATGAATGCTCTTCGAACTTAGCCCGGATACA-TCACT
* * *
30389 AGCATGAATGCTCTTCGGGACTTTG-CC-GATACATCGCT
1 AGCATGAATGCTCTTC-GAACTTAGCCCGGATACATCACT
30427 AGCATCGAAATGCCTCTTCG
1 AGCAT-G-AATG-CTCTTCG
30447 GGACTTACCG
Statistics
Matches: 141, Mismatches: 18, Indels: 35
0.73 0.09 0.18
Matches are distributed among these distances:
35 3 0.02
36 5 0.04
37 11 0.08
38 18 0.13
39 37 0.26
40 29 0.21
41 13 0.09
42 2 0.01
43 7 0.05
44 13 0.09
45 3 0.02
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (39 bp):
AGCATGAATGCTCTTCGAACTTAGCCCGGATACATCACT
Found at i:30407 original size:80 final size:74
Alignment explanation
Indices: 30229--30446 Score: 208
Period size: 80 Copynumber: 2.8 Consensus size: 74
30219 CAACGGCACC
* *
30229 AGCATGATTGCTCTTCGGGATTTAGCACGGATAATCTATCACTAGCACGGAATGCTCTTCGAATA
1 AGCATGAATGCTCTTCGGGACTTAGC-CGGAT-A--TATCACTAGCAC-GAATGCTCTTCGAAT-
30294 AATAGCCGGTACCACT
60 -ATAGCCGGTACCACT
*
30310 AGCATGAATGTTC-TCGGGACTTAGCGCGGATATATCACTAGCACGAATGCTCTTCGAACT-TAG
1 AGCATGAATGCTCTTCGGGACTTAGC-CGGATATATCACTAGCACGAATGCTCTTCGAA-TATAG
30373 CCCGGATACATTCACT
64 -CCGG-TAC---CACT
* * *
30389 AGCATGAATGCTCTTCGGGACTTTGCC-GATACATCGCTAGCATCGAAATGCCTCTTCG
1 AGCATGAATGCTCTTCGGGACTTAGCCGGATATATCACTAGCA-CG-AATG-CTCTTCG
30447 GGACTTACCG
Statistics
Matches: 119, Mismatches: 8, Indels: 20
0.81 0.05 0.14
Matches are distributed among these distances:
74 3 0.03
75 4 0.03
76 17 0.14
77 13 0.11
78 13 0.11
79 20 0.17
80 31 0.26
81 18 0.15
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (74 bp):
AGCATGAATGCTCTTCGGGACTTAGCCGGATATATCACTAGCACGAATGCTCTTCGAATATAGCC
GGTACCACT
Found at i:30873 original size:29 final size:29
Alignment explanation
Indices: 30839--30904 Score: 100
Period size: 29 Copynumber: 2.3 Consensus size: 29
30829 TAATCAACCA
*
30839 CGCACACTTAGTGCCATGTACTTT-AAGCT
1 CGCACACTTAGTGCCATGCA-TTTCAAGCT
30868 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATGCATTTCAAGCT
30897 -GCACACTT
1 CGCACACTT
30905 GTACCAACTC
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
28 11 0.31
29 24 0.69
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAGCT
Found at i:30967 original size:43 final size:41
Alignment explanation
Indices: 30897--30992 Score: 142
Period size: 43 Copynumber: 2.3 Consensus size: 41
30887 ATTTCAAGCT
*
30897 GCACACTT-GTACCAACTCACAACCGTGAACACTTATTG-CC
1 GCACACTTAGTGCCAACTCACAACCGTGAACACTTA-TGCCC
30937 GCACACTTAGTGCCAATCTCACAAACCGTGAACACTTATGCCC
1 GCACACTTAGTGCCAA-CTCAC-AACCGTGAACACTTATGCCC
30980 GCACACTTAGTGC
1 GCACACTTAGTGC
30993 TGAAACCAAC
Statistics
Matches: 51, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
40 8 0.16
41 6 0.12
42 7 0.14
43 30 0.59
ACGTcount: A:0.29, C:0.34, G:0.15, T:0.22
Consensus pattern (41 bp):
GCACACTTAGTGCCAACTCACAACCGTGAACACTTATGCCC
Found at i:33253 original size:46 final size:47
Alignment explanation
Indices: 33075--33442 Score: 496
Period size: 46 Copynumber: 8.0 Consensus size: 47
33065 CGTGCCCTGT
* *
33075 TCACATATATCCACTTTCACATTCATCACATC-GC-CTTAGG-CTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
33119 T--CATATATACACTTTCACATTCATC-CATCGGCTATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
33163 T-ACATATATACACTTTCACATTCATTCACATCGGCTATTA-GCCTTA
1 TCACATATATACACTTTCACATTCA-TCACATCGGCTATTAGGCCTTA
* *
33209 T-ACA-ATATAAACTTTCACCTTCATCACATCGGCTTATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGC-TATTAGGCCTTA
* *
33255 TCACACATATACACTTTCACATTCATCA-GTCGGCTATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
*
33301 TCACACATATACACTTTCACATTCATCACATCGGC-ATTAGG-CTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
33346 TCACATATATATACAC-TTCACATTCATCACATTCGGCTATTAGGCC-TA
1 TCAC--ATATATACACTTTCACATTCATCACA-TCGGCTATTAGGCCTTA
*
33394 TCCACATATATACACTTTCACAATTCATCACATCGGCCATTAGGCCTTA
1 T-CACATATATACACTTTCAC-ATTCATCACATCGGCTATTAGGCCTTA
33443 CTATCATTTC
Statistics
Matches: 294, Mismatches: 10, Indels: 35
0.87 0.03 0.10
Matches are distributed among these distances:
41 4 0.01
42 25 0.09
43 5 0.02
44 16 0.05
45 52 0.18
46 80 0.27
47 49 0.17
48 47 0.16
49 16 0.05
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (47 bp):
TCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
Found at i:33328 original size:94 final size:93
Alignment explanation
Indices: 33075--33442 Score: 492
Period size: 94 Copynumber: 4.0 Consensus size: 93
33065 CGTGCCCTGT
* *
33075 TCACATATATCCACTTTCACATTCATCACATC-GC-CTTAGG-CTTAT-CATATATACACTTTCA
1 TCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATACATATATACACTTTCA
33136 CATTCATC-CATCGGCTATTAGGCCTTA
66 CATTCATCACATCGGCTATTAGGCCTTA
*
33163 T-ACATATATACACTTTCACATTCATTCACATCGGCTATTA-GCCTTATACA-ATATAAACTTTC
1 TCACATATATACACTTTCACATTCA-TCACATCGGCTATTAGGCCTTATACATATATACACTTTC
*
33225 ACCTTCATCACATCGGCTTATTAGGCCTTA
65 ACATTCATCACATCGGC-TATTAGGCCTTA
* * *
33255 TCACACATATACACTTTCACATTCATCA-GTCGGCTATTAGGCCTTATCACACATATACACTTTC
1 TCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTAT-ACATATATACACTTTC
33319 ACATTCATCACATCGGC-ATTAGG-CTTA
65 ACATTCATCACATCGGCTATTAGGCCTTA
33346 TCACATATATATACAC-TTCACATTCATCACATTCGGCTATTAGGCC-TATCCACATATATACAC
1 TCAC--ATATATACACTTTCACATTCATCACA-TCGGCTATTAGGCCTTAT--ACATATATACAC
*
33409 TTTCACAATTCATCACATCGGCCATTAGGCCTTA
61 TTTCAC-ATTCATCACATCGGCTATTAGGCCTTA
33443 CTATCATTTC
Statistics
Matches: 250, Mismatches: 11, Indels: 29
0.86 0.04 0.10
Matches are distributed among these distances:
87 22 0.09
88 8 0.03
89 3 0.01
90 27 0.11
91 27 0.11
92 42 0.17
93 37 0.15
94 59 0.24
95 15 0.06
96 6 0.02
97 4 0.02
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (93 bp):
TCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATACATATATACACTTTCA
CATTCATCACATCGGCTATTAGGCCTTA
Done.