Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold_752
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: 47669
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Found at i:8561 original size:46 final size:46
Alignment explanation
Indices: 8501--8766 Score: 172
Period size: 46 Copynumber: 5.7 Consensus size: 46
8491 TTGGGCATCT
* * *
8501 GAACTCCTTAAGTTGAGTCCGAGCTCACTTATGGATGCGAACGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC
* * *
8547 GAACTTGTTGAGTTGAGTCCGAGTTCA-TGA--GATG-TAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G--TCC
* * * *
8594 AAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAAAGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC
* * *
8640 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G--TCC
* * * *
8687 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATTGACGCGAAC-ACC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC
* * * * *
8732 TGAGCTTGTTGAGTTGATTCCAAGTTCGCTTATGG
1 -GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
8767 GCGAGTTACA
Statistics
Matches: 170, Mismatches: 31, Indels: 38
0.71 0.13 0.16
Matches are distributed among these distances:
42 5 0.03
43 8 0.05
45 8 0.05
46 78 0.46
47 54 0.32
48 5 0.03
50 7 0.04
51 5 0.03
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC
Found at i:8608 original size:93 final size:93
Alignment explanation
Indices: 8502--8758 Score: 354
Period size: 93 Copynumber: 2.8 Consensus size: 93
8492 TGGGCATCTG
* * *
8502 AACTCCTTAAGTTGAGTCCGAGCTCACTTATGGATGCGAACGTCCGAACTTGTTGAGTTGAGTCC
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTTGTTGAGTTGAGTCC
8567 GAGTTCATGAGATGTAACTAGGCATCCA
66 GAGTTCATGAGATGTAACTAGGCATCCA
* * * *
8595 AACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAAAGTCTGAACTCGTTGAGTTGAGTCC
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTTGTTGAGTTGAGTCC
* *
8660 GAGTTCGTGAGATGTAACTAGGCATCCG
66 GAGTTCATGAGATGTAACTAGGCATCCA
* * * * * *
8688 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATTGACGCGAAC-ACCTGAGCTTGTTGAGTTGATTC
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTTGTTGAGTTGAGTC
*
8752 CAAGTTC
65 CGAGTTC
8759 GCTTATGGGC
Statistics
Matches: 143, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
92 1 0.01
93 142 0.99
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (93 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTTGTTGAGTTGAGTCC
GAGTTCATGAGATGTAACTAGGCATCCA
Found at i:8612 original size:47 final size:47
Alignment explanation
Indices: 8544--8713 Score: 197
Period size: 47 Copynumber: 3.6 Consensus size: 47
8534 GATGCGAACG
*
8544 TCCGAACTTGTTGAGTTGAGTCCGAGTTCATGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATGAGATGTAACTAGGCA
* * * *
8591 TCCAAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAA--A-G--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TGA--GATG-TAACTAGGCA
* *
8637 TCTGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATGAGATGTAACTAGGCA
*
8684 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA
8714 CTTATTGACG
Statistics
Matches: 100, Mismatches: 14, Indels: 18
0.76 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 3 0.03
46 26 0.26
47 54 0.54
48 3 0.03
49 1 0.01
50 4 0.04
51 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCATGAGATGTAACTAGGCA
Found at i:11762 original size:15 final size:15
Alignment explanation
Indices: 11742--11794 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
11732 TCTTGGGTTC
11742 CTTTATTCTGGATTT
1 CTTTATTCTGGATTT
11757 CTTTATTCTAGG-TTT
1 CTTTATTCT-GGATTT
* *
11772 C-TCAATCTTGGATTT
1 CTTTATTC-TGGATTT
11787 CTTTATTC
1 CTTTATTC
11795 AGTTTTCTTG
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
14 6 0.20
15 18 0.60
16 6 0.20
ACGTcount: A:0.15, C:0.17, G:0.11, T:0.57
Consensus pattern (15 bp):
CTTTATTCTGGATTT
Found at i:14645 original size:47 final size:47
Alignment explanation
Indices: 14586--14705 Score: 195
Period size: 47 Copynumber: 2.6 Consensus size: 47
14576 CGAACGTCTG
14586 AACTCGTTGAGTTGAGTCCGAGTTCATGAGATGTAACTAGGCATCCA
1 AACTCGTTGAGTTGAGTCCGAGTTCATGAGATGTAACTAGGCATCCA
* * *
14633 AACTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCATGAGATGTAACTAGGCATCCA
* *
14680 AGCTCGTTGAGTTGAGTTCGAGTTCA
1 AACTCGTTGAGTTGAGTCCGAGTTCA
14706 CTTATGGATG
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 66 1.00
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.30
Consensus pattern (47 bp):
AACTCGTTGAGTTGAGTCCGAGTTCATGAGATGTAACTAGGCATCCA
Found at i:22302 original size:46 final size:46
Alignment explanation
Indices: 22234--22409 Score: 167
Period size: 46 Copynumber: 3.8 Consensus size: 46
22224 TGTAACCCAC
* * * *
22234 CCATAAGTGAACTCGTAATCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
* * * * * *
22280 CCATAAGTGAACTCGGACTCAACTCAACGATTTCGTATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-TTCGCAT
* * * * * *
22326 ACATTTCA-CGAACTCGGACTCAACTCAATGAGTTCAGACATTCGCAT
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
22373 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
22410 TGCTCAACCA
Statistics
Matches: 98, Mismatches: 27, Indels: 10
0.73 0.20 0.07
Matches are distributed among these distances:
45 2 0.02
46 64 0.65
47 30 0.31
48 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
Found at i:22352 original size:93 final size:93
Alignment explanation
Indices: 22242--22412 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
22232 ACCCATAAGT
* * * *
22242 GAACTCGTAATCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGAATCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
22307 CGATTTCGTATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* * *
22335 GAACTCGGACTCAACTCAATGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGAATCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
22400 CGAGTTCGGATGC
66 CGAGTTCGGATGC
22413 TCAACCATCC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.24
Consensus pattern (93 bp):
GAACTCGGAATCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:25762 original size:27 final size:27
Alignment explanation
Indices: 25732--25909 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
25722 ATATTGAGTC
* * * *
25732 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
25759 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
25786 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
25814 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
25841 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
25868 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
25895 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
25910 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:25871 original size:82 final size:81
Alignment explanation
Indices: 25753--25908 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
25743 TGCTATATAA
* *
25753 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
25818 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
25835 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
25899 CACTTAGTGC
65 CACTTAGTGC
25909 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:33067 original size:93 final size:93
Alignment explanation
Indices: 32939--33109 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
32929 GCCCATAAGT
* * * *
32939 GAACTCGGACTCAACTCAATGAGCTCGAGCGTTCGCATCCATAAGTGAGCTCGGAGTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
33004 CGATTTCGTATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
33032 GAACTCGGACTCAACTCAACGAGTTCG-GACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGAG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCA
33096 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
33110 TCAACCATCC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 1 0.01
93 69 0.99
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:33089 original size:46 final size:46
Alignment explanation
Indices: 32931--33106 Score: 164
Period size: 46 Copynumber: 3.8 Consensus size: 46
32921 TGTAACCCGC
* * *
32931 CCATAAGTGAACTCGGACTCAACTCAATGAGCTC-GAGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-CATTCGCAT
* * * * *
32977 CCATAAGTGAGCTCGGAGTCAACTCAACGATTTCGTATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCG---GAC-A-TTCGCAT
* * *
33027 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
33070 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
33107 TGCTCAACCA
Statistics
Matches: 101, Mismatches: 19, Indels: 20
0.72 0.14 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 58 0.57
47 24 0.24
48 2 0.02
49 1 0.01
50 4 0.04
51 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:33566 original size:30 final size:30
Alignment explanation
Indices: 33532--33591 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
33522 ATTTAATACG
33532 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
33562 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
33592 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:35921 original size:19 final size:19
Alignment explanation
Indices: 35897--35934 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
35887 TGGGCCTCGA
35897 TGGGCCGAAATGGG-TCGTG
1 TGGGCC-AAATGGGCTCGTG
*
35916 TGGGCCCAATGGGCTCGTG
1 TGGGCCAAATGGGCTCGTG
35935 GGCCCACACG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.13, C:0.21, G:0.45, T:0.21
Consensus pattern (19 bp):
TGGGCCAAATGGGCTCGTG
Found at i:36240 original size:27 final size:26
Alignment explanation
Indices: 36184--36330 Score: 131
Period size: 26 Copynumber: 5.7 Consensus size: 26
36174 CCTAGGTTAT
** *
36184 AAATTACCAAAATACCCTGATTTGTG
1 AAATTACTGAAATACCCTGATTTGTA
* *
36210 AAATTATTGAAATACCCTCGATTTGTG
1 AAATTACTGAAATACCCT-GATTTGTA
* * *
36237 AAATTACTAAAATACCTTGAATTGTA
1 AAATTACTGAAATACCCTGATTTGTA
*
36263 AAATTACTGAAATACCC-CAGTTTGTA
1 AAATTACTGAAATACCCTGA-TTTGTA
* *
36289 AAATTA-TCAAATACCCTG-TAGTGTA
1 AAATTACTGAAATACCCTGAT-TTGTA
36314 AAATTA-TCGAAATACCC
1 AAATTACT-GAAATACCC
36331 CTATAGGGTA
Statistics
Matches: 100, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
24 1 0.01
25 21 0.21
26 55 0.55
27 23 0.23
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.32
Consensus pattern (26 bp):
AAATTACTGAAATACCCTGATTTGTA
Found at i:36267 original size:53 final size:52
Alignment explanation
Indices: 36155--36331 Score: 189
Period size: 53 Copynumber: 3.4 Consensus size: 52
36145 ATCCCGAGTG
* * * * *
36155 GTAAAATTATTGAAGTACCCCTAGGTTAT-AAATTACCAAAATACCCTGATTT
1 GTAAAATTATTGAAATACCCC-AGTTTGTAAAATTACTAAAATACCCTGAATT
* * *
36207 GTGAAATTATTGAAATACCCTC-GATTTGTGAAATTACTAAAATACCTTGAATT
1 GTAAAATTATTGAAATACCC-CAG-TTTGTAAAATTACTAAAATACCCTGAATT
* * * *
36260 GTAAAATTACTGAAATACCCCAGTTTGTAAAATTA-TCAAATACCCTGTAGT
1 GTAAAATTATTGAAATACCCCAGTTTGTAAAATTACTAAAATACCCTGAATT
*
36311 GTAAAATTATCGAAATACCCC
1 GTAAAATTATTGAAATACCCC
36332 TATAGGGTAA
Statistics
Matches: 105, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
51 32 0.30
52 33 0.31
53 40 0.38
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.32
Consensus pattern (52 bp):
GTAAAATTATTGAAATACCCCAGTTTGTAAAATTACTAAAATACCCTGAATT
Found at i:36313 original size:25 final size:26
Alignment explanation
Indices: 36259--36344 Score: 95
Period size: 25 Copynumber: 3.3 Consensus size: 26
36249 TACCTTGAAT
* * *
36259 TGTAAAATTACTGAAATACCCCAGT-T
1 TGTAAAATTA-TCAAATACCCCTGTAG
36285 TGTAAAATTATCAAATA-CCCTGTAG
1 TGTAAAATTATCAAATACCCCTGTAG
*
36310 TGTAAAATTATCGAAATACCCCTATAG
1 TGTAAAATTATC-AAATACCCCTGTAG
*
36337 GGTAAAAT
1 TGTAAAAT
36345 GACTATTTTG
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
24 5 0.10
25 18 0.35
26 15 0.29
27 14 0.27
ACGTcount: A:0.41, C:0.16, G:0.13, T:0.30
Consensus pattern (26 bp):
TGTAAAATTATCAAATACCCCTGTAG
Found at i:36341 original size:27 final size:25
Alignment explanation
Indices: 36286--36344 Score: 82
Period size: 27 Copynumber: 2.3 Consensus size: 25
36276 ACCCCAGTTT
* *
36286 GTAAAATTATCAAATACCCTGTAGT
1 GTAAAATTATCAAATACCCTATAGG
36311 GTAAAATTATCGAAATACCCCTATAGG
1 GTAAAATTATC-AAATA-CCCTATAGG
36338 GTAAAAT
1 GTAAAAT
36345 GACTATTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 11 0.37
26 5 0.17
27 14 0.47
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.29
Consensus pattern (25 bp):
GTAAAATTATCAAATACCCTATAGG
Found at i:38703 original size:28 final size:28
Alignment explanation
Indices: 38671--38752 Score: 83
Period size: 28 Copynumber: 2.9 Consensus size: 28
38661 ACTATGAGTG
*
38671 TGATTAGGCTTGACGAGCCATATGAAAA
1 TGATTAGGCCTGACGAGCCATATGAAAA
* * * *
38699 TGATTGGGCCTGATGGGCCATATGAAAG
1 TGATTAGGCCTGACGAGCCATATGAAAA
* * * *
38727 TGATTGGGCCCGATGGGCCATATGAA
1 TGATTAGGCCTGACGAGCCATATGAA
38753 TGAGATTGGG
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 48 1.00
ACGTcount: A:0.28, C:0.16, G:0.32, T:0.24
Consensus pattern (28 bp):
TGATTAGGCCTGACGAGCCATATGAAAA
Found at i:38759 original size:28 final size:27
Alignment explanation
Indices: 38687--38764 Score: 102
Period size: 28 Copynumber: 2.8 Consensus size: 27
38677 GGCTTGACGA
* *
38687 GCCATATGAAAATGATTGGGCCTGATGG
1 GCCATATGAAGA-GATTGGGCCCGATGG
*
38715 GCCATATGAAAGTGATTGGGCCCGATGG
1 GCCATATG-AAGAGATTGGGCCCGATGG
38743 GCCATATGAATGAGATTGGGCC
1 GCCATATGAA-GAGATTGGGCC
38765 TAAAGGGGCC
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
27 2 0.05
28 40 0.91
29 2 0.05
ACGTcount: A:0.27, C:0.17, G:0.33, T:0.23
Consensus pattern (27 bp):
GCCATATGAAGAGATTGGGCCCGATGG
Found at i:41505 original size:39 final size:39
Alignment explanation
Indices: 41387--41647 Score: 275
Period size: 39 Copynumber: 6.6 Consensus size: 39
41377 GCTCCTCGTT
* * * *
41387 CAAATGCCTTCGGGACATAG-CCTGATTATAGTAAT-TCGTA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
41427 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
* *
41467 CAAATGCCTTCAGGCTTAGCTCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
*
41506 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCACA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
41545 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
* * *
41584 C-AATGCCTTCGGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-ATC-TCGCA
41624 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
41648 CATCATTCAA
Statistics
Matches: 195, Mismatches: 19, Indels: 15
0.85 0.08 0.07
Matches are distributed among these distances:
38 11 0.06
39 128 0.66
40 50 0.26
41 6 0.03
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.27
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Done.