Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold907
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: 25292
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Found at i:2972 original size:20 final size:20
Alignment explanation
Indices: 2947--3017 Score: 117
Period size: 20 Copynumber: 3.5 Consensus size: 20
2937 TATAAGCAAC
2947 GTATCGATACAATTCAACAT
1 GTATCGATACAATTCAACAT
2967 GTATCGATACAATTCAACAT
1 GTATCGATACAATTCAACAT
*
2987 GTATCGATACAATGT-ACCAT
1 GTATCGATACAAT-TCAACAT
3007 GTATCGATACA
1 GTATCGATACA
3018 TTATATCGAT
Statistics
Matches: 49, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
20 48 0.98
21 1 0.02
ACGTcount: A:0.38, C:0.20, G:0.13, T:0.30
Consensus pattern (20 bp):
GTATCGATACAATTCAACAT
Found at i:3008 original size:40 final size:35
Alignment explanation
Indices: 2947--3051 Score: 117
Period size: 33 Copynumber: 2.9 Consensus size: 35
2937 TATAAGCAAC
*
2947 GTATCGATACAAT-TCAACATGTATCGATACAATTCAACA
1 GTATCGATACAATGT-ACCATGTATCGATACAATT----A
2986 TGTATCGATACAATGTACCATGTATCGATAC-ATTA
1 -GTATCGATACAATGTACCATGTATCGATACAATTA
*
3021 -TATCGATACAATGTGCCATGTATCGATACAA
1 GTATCGATACAATGTACCATGTATCGATACAA
3052 ACAGTGGTAG
Statistics
Matches: 61, Mismatches: 2, Indels: 10
0.84 0.03 0.14
Matches are distributed among these distances:
33 28 0.46
34 1 0.02
35 1 0.02
39 3 0.05
40 27 0.44
41 1 0.02
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.30
Consensus pattern (35 bp):
GTATCGATACAATGTACCATGTATCGATACAATTA
Found at i:3046 original size:20 final size:18
Alignment explanation
Indices: 2947--3051 Score: 103
Period size: 20 Copynumber: 5.7 Consensus size: 18
2937 TATAAGCAAC
2947 GTATCGATACAATTCAACAT
1 GTATCGATACAATTC--CAT
2967 GTATCGATACAATTCAACAT
1 GTATCGATACAATTC--CAT
2987 GTATCGATACAATGTACCAT
1 GTATCGATACAAT-T-CCAT
3007 GTATCGATAC-ATT--A-
1 GTATCGATACAATTCCAT
3021 -TATCGATACAATGTGCCAT
1 GTATCGATACAAT-T-CCAT
3040 GTATCGATACAA
1 GTATCGATACAA
3052 ACAGTGGTAG
Statistics
Matches: 76, Mismatches: 0, Indels: 18
0.81 0.00 0.19
Matches are distributed among these distances:
13 9 0.12
14 2 0.03
15 2 0.03
18 2 0.03
19 2 0.03
20 57 0.75
21 1 0.01
22 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.30
Consensus pattern (18 bp):
GTATCGATACAATTCCAT
Found at i:7034 original size:13 final size:13
Alignment explanation
Indices: 7016--7040 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7006 CATTTTATGG
7016 TGTATCGATACAA
1 TGTATCGATACAA
7029 TGTATCGATACA
1 TGTATCGATACA
7041 TACTTTGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:7056 original size:32 final size:33
Alignment explanation
Indices: 6993--7060 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
6983 CGTTGCAAGC
*
6993 CAATGTATCGATACATTTTATGGTGTATCGATA
1 CAATGTATCGATACATCTTATGGTGTATCGATA
7026 CAATGTATCGATACATACTT-T-GTGTATCGATA
1 CAATGTATCGATACAT-CTTATGGTGTATCGATA
7058 CAA
1 CAA
7061 GTTTGGCTAC
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
32 14 0.42
33 17 0.52
34 2 0.06
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (33 bp):
CAATGTATCGATACATCTTATGGTGTATCGATA
Found at i:7140 original size:20 final size:20
Alignment explanation
Indices: 7115--7167 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
7105 CTTTTTCGTA
*
7115 TATCGATACAATGCAACATG
1 TATCGATACAATGAAACATG
** * *
7135 TATCGATACTTTTAAACGTG
1 TATCGATACAATGAAACATG
7155 TATCGATACAATG
1 TATCGATACAATG
7168 TATCGATACA
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (20 bp):
TATCGATACAATGAAACATG
Found at i:7171 original size:13 final size:13
Alignment explanation
Indices: 7153--7177 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7143 CTTTTAAACG
7153 TGTATCGATACAA
1 TGTATCGATACAA
7166 TGTATCGATACA
1 TGTATCGATACA
7178 TACTTTGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:7241 original size:137 final size:137
Alignment explanation
Indices: 6995--7300 Score: 524
Period size: 137 Copynumber: 2.2 Consensus size: 137
6985 TTGCAAGCCA
**
6995 ATGTATCGATACATTTT-ATGGTGTATCGATACAATGTATCGATACATACTTTGTGTATCGATAC
1 ATGTATCGATAC-TTTTAAACGTGTATCGATACAATGTATCGATACATACTTTGTGTATCGATAC
*
7059 AAGTTTGGCTACTGCCAAGAAATCCCAATAACATATATCGATACATCTTTTTCGTATATCGATAC
65 AAGTTTGGCTACTGCCAAGAAATCCCAATAACATATATCGATACATCTTTTTCATATATCGATAC
7124 AATGCAAC
130 AATGCAAC
7132 ATGTATCGATACTTTTAAACGTGTATCGATACAATGTATCGATACATACTTTGTGTATCGATACA
1 ATGTATCGATACTTTTAAACGTGTATCGATACAATGTATCGATACATACTTTGTGTATCGATACA
* * *
7197 AGTTTGGCTACTGCCAAGAAATCCCAATGACATGTATCGATACATCTTTTTCATGTATCGATACA
66 AGTTTGGCTACTGCCAAGAAATCCCAATAACATATATCGATACATCTTTTTCATATATCGATACA
*
7262 CTGCAAC
131 ATGCAAC
*
7269 ATGTATCGATACTTTTAAATGTGTATCGATAC
1 ATGTATCGATACTTTTAAACGTGTATCGATAC
7301 TTTTCAGGGT
Statistics
Matches: 160, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
136 4 0.03
137 156 0.98
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (137 bp):
ATGTATCGATACTTTTAAACGTGTATCGATACAATGTATCGATACATACTTTGTGTATCGATACA
AGTTTGGCTACTGCCAAGAAATCCCAATAACATATATCGATACATCTTTTTCATATATCGATACA
ATGCAAC
Found at i:9741 original size:13 final size:13
Alignment explanation
Indices: 9723--9761 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
9713 ATAATCCCCC
*
9723 TGTATCGATACAG
1 TGTATCGATACAA
9736 TGTATCGATACAA
1 TGTATCGATACAA
9749 TGTATCGATACAA
1 TGTATCGATACAA
9762 AGAATGATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:14329 original size:9 final size:9
Alignment explanation
Indices: 14315--14344 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
14305 TCTGAGTCAC
*
14315 CATCATCAT
1 CATCATCTT
14324 CATCATCTT
1 CATCATCTT
14333 CATCATCTT
1 CATCATCTT
14342 CAT
1 CAT
14345 TGTCCTTGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.27, C:0.33, G:0.00, T:0.40
Consensus pattern (9 bp):
CATCATCTT
Found at i:15979 original size:13 final size:13
Alignment explanation
Indices: 15961--15985 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15951 CATTTTATGG
15961 TGTATCGATACAA
1 TGTATCGATACAA
15974 TGTATCGATACA
1 TGTATCGATACA
15986 TACTTTGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:16001 original size:32 final size:33
Alignment explanation
Indices: 15939--16005 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
15929 GTTGCAAGCT
*
15939 AATGTATCGATACATTTTATGGTGTATCGATAC
1 AATGTATCGATACATCTTATGGTGTATCGATAC
15972 AATGTATCGATACATACTT-T-GTGTATCGATAC
1 AATGTATCGATACAT-CTTATGGTGTATCGATAC
16004 AA
1 AA
16006 GTTTGGCTAC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
32 14 0.44
33 16 0.50
34 2 0.06
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.37
Consensus pattern (33 bp):
AATGTATCGATACATCTTATGGTGTATCGATAC
Found at i:16116 original size:13 final size:13
Alignment explanation
Indices: 16098--16124 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
16088 CTTTTAAACG
16098 TGTATCGATACAA
1 TGTATCGATACAA
16111 TGTATCGATACAA
1 TGTATCGATACAA
16124 T
1 T
16125 CATTTTAAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:18260 original size:13 final size:13
Alignment explanation
Indices: 18242--18266 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18232 AACTCACTTA
18242 GTATCGATACATT
1 GTATCGATACATT
18255 GTATCGATACAT
1 GTATCGATACAT
18267 GATGAATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:18277 original size:20 final size:20
Alignment explanation
Indices: 18247--18306 Score: 84
Period size: 20 Copynumber: 3.0 Consensus size: 20
18237 ACTTAGTATC
*
18247 GATACATTGTATCGATACAT
1 GATAAATTGTATCGATACAT
*
18267 GATGAATTGTATCGATACAT
1 GATAAATTGTATCGATACAT
* *
18287 GGTAAAATGTATCGATACAT
1 GATAAATTGTATCGATACAT
18307 TGAGCCCAAC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (20 bp):
GATAAATTGTATCGATACAT
Found at i:19875 original size:13 final size:13
Alignment explanation
Indices: 19857--19882 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
19847 ACACATCTAG
19857 ATGTATCGATACA
1 ATGTATCGATACA
19870 ATGTATCGATACA
1 ATGTATCGATACA
19883 TGCTCATTGT
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:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:19895 original size:19 final size:20
Alignment explanation
Indices: 19871--19923 Score: 90
Period size: 19 Copynumber: 2.7 Consensus size: 20
19861 ATCGATACAA
19871 TGTATCGATACATGCTC-AT
1 TGTATCGATACATGCTCAAT
*
19890 TGTATCGATACATACTCAAT
1 TGTATCGATACATGCTCAAT
19910 TGTATCGATACATG
1 TGTATCGATACATG
19924 AAACTGACAG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATGCTCAAT
Found at i:19969 original size:42 final size:42
Alignment explanation
Indices: 19910--20004 Score: 181
Period size: 42 Copynumber: 2.3 Consensus size: 42
19900 CATACTCAAT
19910 TGTATCGATACATGAAACTGACAGTAGCTACCCTAAGTGAAA
1 TGTATCGATACATGAAACTGACAGTAGCTACCCTAAGTGAAA
19952 TGTATCGATACATGAAACTGACAGTAGCTACCCTAAGTGAAA
1 TGTATCGATACATGAAACTGACAGTAGCTACCCTAAGTGAAA
*
19994 TGTATCAATAC
1 TGTATCGATAC
20005 GTGGGACATT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (42 bp):
TGTATCGATACATGAAACTGACAGTAGCTACCCTAAGTGAAA
Found at i:20057 original size:33 final size:33
Alignment explanation
Indices: 19992--20058 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
19982 CCCTAAGTGA
* * **
19992 AATGTATCAATACGTGGGACATTGTATCGATAC
1 AATGTATCAATACATGGGAAAAAGTATCGATAC
* *
20025 AATGTATCAATACATGGTAAAAAGTATTGATAC
1 AATGTATCAATACATGGGAAAAAGTATCGATAC
20058 A
1 A
20059 TTGTGCCTAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.40, C:0.12, G:0.18, T:0.30
Consensus pattern (33 bp):
AATGTATCAATACATGGGAAAAAGTATCGATAC
Found at i:21242 original size:13 final size:13
Alignment explanation
Indices: 21223--21259 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
21213 ACTATTTATG
21223 ATGTATCGATACA
1 ATGTATCGATACA
*
21236 CTGTATCGATACA
1 ATGTATCGATACA
21249 ATGTATCGATA
1 ATGTATCGATA
21260 TATGAATAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:21327 original size:31 final size:32
Alignment explanation
Indices: 21249--21337 Score: 119
Period size: 34 Copynumber: 2.8 Consensus size: 32
21239 TATCGATACA
*
21249 ATGTATCGATATATGAATAGTGATGAACAGTG
1 ATGTATCGATACATGAATAGTGATGAACAGTG
* *
21281 ATTTTTAACGATACATGAATAGTG-TGAACAGTG
1 A--TGTATCGATACATGAATAGTGATGAACAGTG
21314 ATGTATCGATACATGAA-AGTGATG
1 ATGTATCGATACATGAATAGTGATG
21338 TATCGATACA
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
30 4 0.08
31 16 0.33
32 1 0.02
33 10 0.20
34 18 0.37
ACGTcount: A:0.37, C:0.08, G:0.24, T:0.31
Consensus pattern (32 bp):
ATGTATCGATACATGAATAGTGATGAACAGTG
Found at i:21359 original size:22 final size:22
Alignment explanation
Indices: 21305--21359 Score: 103
Period size: 21 Copynumber: 2.5 Consensus size: 22
21295 ATGAATAGTG
21305 TGAACAGTGATGTATCGATACA
1 TGAACAGTGATGTATCGATACA
21327 TGAA-AGTGATGTATCGATACA
1 TGAACAGTGATGTATCGATACA
21348 TGAACAGTGATG
1 TGAACAGTGATG
21360 AATAGTGATG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 21 0.66
22 11 0.34
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.27
Consensus pattern (22 bp):
TGAACAGTGATGTATCGATACA
Found at i:21366 original size:10 final size:10
Alignment explanation
Indices: 21347--21377 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
21337 GTATCGATAC
21347 ATGAACAGTG
1 ATGAACAGTG
*
21357 ATGAATAGTG
1 ATGAACAGTG
21367 ATGAACAGTG
1 ATGAACAGTG
21377 A
1 A
21378 GATGAGATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.42, C:0.06, G:0.29, T:0.23
Consensus pattern (10 bp):
ATGAACAGTG
Found at i:21464 original size:53 final size:53
Alignment explanation
Indices: 21400--21536 Score: 184
Period size: 53 Copynumber: 2.6 Consensus size: 53
21390 CTACTACCAA
* ** *
21400 TGTATCGATACATATTTTGTATATCGATACAAGTTTGGCTACTGCCAGTGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAAATTGGCTACTGCCAATGACC
* * *
21453 TGTATTGATACATATTGTGTGTATCGATACAAAATTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAAATTGGCTACTGCCAATGACC
* *
21506 TATATCAATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
21537 TATGCAATCT
Statistics
Matches: 72, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
53 59 0.82
54 13 0.18
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAAATTGGCTACTGCCAATGACC
Found at i:21572 original size:21 final size:20
Alignment explanation
Indices: 21524--21578 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
21514 TACATATTTG
**
21524 TGTGTATCGATACTATGCAA
1 TGTGTATCGATACTATAAAA
* *
21544 TCTGTATCGATACATTTAAAA
1 TGTGTATCGATAC-TATAAAA
21565 TGTGTATCGATACT
1 TGTGTATCGATACT
21579 TTTCAGGGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 13 0.45
21 16 0.55
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (20 bp):
TGTGTATCGATACTATAAAA
Found at i:24032 original size:51 final size:50
Alignment explanation
Indices: 23965--24133 Score: 180
Period size: 51 Copynumber: 3.3 Consensus size: 50
23955 TCGAAAATAA
* * * * *
23965 CGGGGTTGGAGTATCCCTGATTTTGGAAAATCGATGCTTTAGAAATAAGAC
1 CGGGGTTGGAGTATCCCTGATTGTGGAAAATTGGTG-TTTAGAAATAAAAT
* *
24016 CGGGGTTGGAGTATCCCCGATTGT-GAGAAATTGGTGTTTGGAAATAAAAT
1 CGGGGTTGGAGTATCCCTGATTGTGGA-AAATTGGTGTTTAGAAATAAAAT
** * *
24066 CGAAGTTGGAGTAT-CCTCGATTGTGAAAAATTGGTATTTTAGAAATAAAAT
1 CGGGGTTGGAGTATCCCT-GATTGTGGAAAATTGGT-GTTTAGAAATAAAAT
*
24117 AGGGGTTGGAGTATCCC
1 CGGGGTTGGAGTATCCC
24134 CTCGGAAATA
Statistics
Matches: 97, Mismatches: 16, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
49 2 0.02
50 39 0.40
51 54 0.56
52 2 0.02
ACGTcount: A:0.30, C:0.11, G:0.28, T:0.30
Consensus pattern (50 bp):
CGGGGTTGGAGTATCCCTGATTGTGGAAAATTGGTGTTTAGAAATAAAAT
Found at i:24079 original size:50 final size:51
Alignment explanation
Indices: 24020--24134 Score: 160
Period size: 50 Copynumber: 2.3 Consensus size: 51
24010 TAAGACCGGG
* * *
24020 GTTGGAGTATCCCCGATTGTGAGAAATTGGT-GTTTGGAAATAAAATCGAA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTAGTTTAGAAATAAAATAGAA
* * **
24070 GTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTAGAAATAAAATAGGG
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTAGTTTAGAAATAAAATAGAA
24121 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
24135 TCGGAAATAA
Statistics
Matches: 56, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
50 29 0.52
51 27 0.48
ACGTcount: A:0.31, C:0.10, G:0.27, T:0.31
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGGTAGTTTAGAAATAAAATAGAA
Found at i:24153 original size:28 final size:28
Alignment explanation
Indices: 24119--24192 Score: 96
Period size: 28 Copynumber: 2.6 Consensus size: 28
24109 AATAAAATAG
**
24119 GGGTTGGAGTATCCCCTCGGAAATAAC-
1 GGGTTGGAGTATCCCCGAGGAAATAACA
*
24146 GGGATTGGAGTATCCCCGATGAAATAACA
1 GGG-TTGGAGTATCCCCGAGGAAATAACA
*
24175 GGGTTGGAGTACCCCCGA
1 GGGTTGGAGTATCCCCGA
24193 TTATGAAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
27 3 0.07
28 35 0.85
29 3 0.07
ACGTcount: A:0.27, C:0.22, G:0.31, T:0.20
Consensus pattern (28 bp):
GGGTTGGAGTATCCCCGAGGAAATAACA
Found at i:24322 original size:51 final size:51
Alignment explanation
Indices: 24263--24423 Score: 157
Period size: 51 Copynumber: 3.2 Consensus size: 51
24253 AATGGGGTTA
**
24263 GAGTATCCCTAATTGTGAAAAATT-AGTGTTTTGGAAATAAAATCGGAGTTG
1 GAGTATCCCCGATTGTGAAAAATTGA-TGTTTTGGAAATAAAATCGGAGTTG
* * * * *
24314 GAGTATCCCCGATTGCTG-TAAATCGATGCTTTAGAAATAAAATCGGAATTG
1 GAGTATCCCCGATTG-TGAAAAATTGATGTTTTGGAAATAAAATCGGAGTTG
* ** * *
24365 GAGTCTCCCCGATTAAGAAAAATTGATGTTTTGGACATGAAATCGG-GATTG
1 GAGTATCCCCGATTGTGAAAAATTGATGTTTTGGAAATAAAATCGGAG-TTG
*
24416 TAGTATCC
1 GAGTATCC
24424 TCAAGATGAA
Statistics
Matches: 87, Mismatches: 19, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
50 1 0.01
51 83 0.95
52 3 0.03
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.31
Consensus pattern (51 bp):
GAGTATCCCCGATTGTGAAAAATTGATGTTTTGGAAATAAAATCGGAGTTG
Done.