Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2304
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: 38444
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Found at i:766 original size:20 final size:21
Alignment explanation
Indices: 725--766 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
715 TAACCCTTAA
*
725 TCATGCATTTTTAACTATGTT
1 TCATGCATTTATAACTATGTT
*
746 TCATGCATTTATAGC-ATGTT
1 TCATGCATTTATAACTATGTT
766 T
1 T
767 AGCACCTCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.24, C:0.14, G:0.12, T:0.50
Consensus pattern (21 bp):
TCATGCATTTATAACTATGTT
Found at i:3697 original size:3 final size:3
Alignment explanation
Indices: 3685--3715 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
3675 CTTACTTCAA
3685 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
3716 ATTAAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:6920 original size:23 final size:23
Alignment explanation
Indices: 6894--6966 Score: 64
Period size: 23 Copynumber: 3.2 Consensus size: 23
6884 TTGCTAAAAT
6894 AACAAGTCTAATCAACTAACATG
1 AACAAGTCTAATCAACTAACATG
* * *
6917 AACAA-T-TGACGTCAAAATTA-AT-
1 AACAAGTCT-A-ATC-AACTAACATG
6939 AACAAGTCTAATCAACTAACATG
1 AACAAGTCTAATCAACTAACATG
6962 AACAA
1 AACAA
6967 TTGACTTCAA
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
21 5 0.14
22 11 0.30
23 16 0.43
24 5 0.14
ACGTcount: A:0.51, C:0.19, G:0.08, T:0.22
Consensus pattern (23 bp):
AACAAGTCTAATCAACTAACATG
Found at i:6940 original size:45 final size:45
Alignment explanation
Indices: 6891--6982 Score: 175
Period size: 45 Copynumber: 2.0 Consensus size: 45
6881 AAGTTGCTAA
6891 AATAACAAGTCTAATCAACTAACATGAACAATTGACGTCAAAATT
1 AATAACAAGTCTAATCAACTAACATGAACAATTGACGTCAAAATT
*
6936 AATAACAAGTCTAATCAACTAACATGAACAATTGACTTCAAAATT
1 AATAACAAGTCTAATCAACTAACATGAACAATTGACGTCAAAATT
6981 AA
1 AA
6983 AAGCCTAGTC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.50, C:0.17, G:0.08, T:0.25
Consensus pattern (45 bp):
AATAACAAGTCTAATCAACTAACATGAACAATTGACGTCAAAATT
Found at i:16563 original size:23 final size:23
Alignment explanation
Indices: 16533--16578 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
16523 GAAAGGTAGG
*
16533 TAGGATAAAGGGTGTATGATCAA
1 TAGGATAAAGGCTGTATGATCAA
16556 TAGGATAAAGGCTGTATGATCAA
1 TAGGATAAAGGCTGTATGATCAA
16579 ACTCTCTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.39, C:0.07, G:0.28, T:0.26
Consensus pattern (23 bp):
TAGGATAAAGGCTGTATGATCAA
Found at i:19193 original size:17 final size:18
Alignment explanation
Indices: 19170--19210 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 18
19160 ATTTAAAATA
19170 TTAAATTTTTA-AT-TTT
1 TTAAATTTTTATATATTT
19186 TATAAATTTTTATATATTT
1 T-TAAATTTTTATATATTT
19205 TTAAAT
1 TTAAAT
19211 AAAAATAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 1 0.05
17 10 0.45
18 7 0.32
19 4 0.18
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TTAAATTTTTATATATTT
Found at i:19243 original size:20 final size:20
Alignment explanation
Indices: 19203--19253 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
19193 TTTTATATAT
* *
19203 TTTTAAATAAA-AATAATAA
1 TTTTAATTAAATAAAAATAA
19222 TTTTAATTAAATAAAAATAA
1 TTTTAATTAAATAAAAATAA
*
19242 TTTAAATTAAAT
1 TTTTAATTAAAT
19254 TGATTTATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 10 0.36
20 18 0.64
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
TTTTAATTAAATAAAAATAA
Found at i:19391 original size:20 final size:20
Alignment explanation
Indices: 19352--19391 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
19342 ATTTGTCATT
19352 ATTTTTCATTTTAATGTTGA
1 ATTTTTCATTTTAATGTTGA
19372 ATTTTATCATTTTAAT-TTGA
1 ATTTT-TCATTTTAATGTTGA
19392 TTAAATCTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.28, C:0.05, G:0.07, T:0.60
Consensus pattern (20 bp):
ATTTTTCATTTTAATGTTGA
Found at i:22721 original size:1 final size:1
Alignment explanation
Indices: 22705--22772 Score: 55
Period size: 1 Copynumber: 68.0 Consensus size: 1
22695 TTTTCTTCCC
* * * * * ** * *
22705 TTTTATTTTTTCTTTTTTTCTTTTTTTTTCTATTTTTCCTTTTTTTTTTTTTTGTTTTTCTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
22770 TTT
1 TTT
22773 CTCTGAAGCA
Statistics
Matches: 51, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 51 1.00
ACGTcount: A:0.03, C:0.09, G:0.01, T:0.87
Consensus pattern (1 bp):
T
Found at i:22723 original size:8 final size:8
Alignment explanation
Indices: 22710--22771 Score: 65
Period size: 8 Copynumber: 7.8 Consensus size: 8
22700 TTCCCTTTTA
22710 TTTTTTCT
1 TTTTTTCT
22718 TTTTTTCTTT
1 TTTTTTC--T
22728 TTTTTTCT
1 TTTTTTCT
* *
22736 ATTTTTCC
1 TTTTTTCT
22744 TTTTTT-T
1 TTTTTTCT
22751 TTTTTT-T
1 TTTTTTCT
*
22758 GTTTTTCT
1 TTTTTTCT
22766 TTTTTT
1 TTTTTT
22772 TCTCTGAAGC
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
7 12 0.27
8 25 0.56
10 8 0.18
ACGTcount: A:0.02, C:0.10, G:0.02, T:0.87
Consensus pattern (8 bp):
TTTTTTCT
Found at i:23491 original size:23 final size:22
Alignment explanation
Indices: 23480--23525 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 22
23470 TCTTGTGTAC
23480 TTATATATTTATTTTAATTGTTA
1 TTATATATTTA-TTTAATTGTTA
23503 TTATATATTTATTT-ATT-TTA
1 TTATATATTTATTTAATTGTTA
23523 TTA
1 TTA
23526 CTCTTAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 6 0.26
21 3 0.13
22 3 0.13
23 11 0.48
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (22 bp):
TTATATATTTATTTAATTGTTA
Found at i:25387 original size:12 final size:12
Alignment explanation
Indices: 25366--25394 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
25356 GCGTTTCTTC
25366 TCTA-TTTTGCT
1 TCTACTTTTGCT
25377 TCTACTTTTGCT
1 TCTACTTTTGCT
25389 TCTACT
1 TCTACT
25395 GTGTTTCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 4 0.24
12 13 0.76
ACGTcount: A:0.10, C:0.24, G:0.07, T:0.59
Consensus pattern (12 bp):
TCTACTTTTGCT
Found at i:28200 original size:136 final size:136
Alignment explanation
Indices: 27956--28209 Score: 431
Period size: 136 Copynumber: 1.9 Consensus size: 136
27946 TGCAATTTGC
* *
27956 AATTGTGTAGTACATATTAAATAGATTGTAGATCAGCTATAGTACTTGTTTAATTTGTTTTCGTT
1 AATTGTGTAGTACAAATTAAATAGATTGCAGATCAGCTATAGTACTTGTTTAATTTGTTTTCGTT
* *
28021 GCCTGTTGTTGATTTTATTTCCCATCACATGCGTCATGGATGATGCATCTGAATGAGTATGCTTG
66 GCCTGTGGTTGATTTTATTTCCCATCACATGCGTCATGGATGATGCATATGAATGAGTATGCTTG
28086 TTGCAA
131 TTGCAA
*
28092 AATTGTGTAGTACAAATTAAATAGATTGCAGATCAGCTATATTACTTGTTTAA-TTGATTTTCGT
1 AATTGTGTAGTACAAATTAAATAGATTGCAGATCAGCTATAGTACTTGTTTAATTTG-TTTTCGT
28156 TGCCTGTGGTTGATTTTATTT-CCATTCACATGCGTCATGGATGATGCATATGAA
65 TGCCTGTGGTTGATTTTATTTCCCA-TCACATGCGTCATGGATGATGCATATGAA
28210 AGAAGAAGAG
Statistics
Matches: 111, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
135 6 0.05
136 105 0.95
ACGTcount: A:0.26, C:0.13, G:0.19, T:0.41
Consensus pattern (136 bp):
AATTGTGTAGTACAAATTAAATAGATTGCAGATCAGCTATAGTACTTGTTTAATTTGTTTTCGTT
GCCTGTGGTTGATTTTATTTCCCATCACATGCGTCATGGATGATGCATATGAATGAGTATGCTTG
TTGCAA
Found at i:29232 original size:8 final size:8
Alignment explanation
Indices: 29215--29253 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
29205 ACCAAAGGAG
*
29215 AGAAAGAA
1 AGAAAAAA
29223 AGAAAAAA
1 AGAAAAAA
29231 AG-AAAAA
1 AGAAAAAA
29238 AGAAAAAA
1 AGAAAAAA
*
29246 ATAAAAAA
1 AGAAAAAA
29254 TAATGCTGAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
7 7 0.25
8 21 0.75
ACGTcount: A:0.85, C:0.00, G:0.13, T:0.03
Consensus pattern (8 bp):
AGAAAAAA
Found at i:29241 original size:15 final size:15
Alignment explanation
Indices: 29215--29253 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
29205 ACCAAAGGAG
29215 AGAAAGAAAGAAAAAA
1 AGAAA-AAAGAAAAAA
29231 AGAAAAAAGAAAAAA
1 AGAAAAAAGAAAAAA
*
29246 ATAAAAAA
1 AGAAAAAA
29254 TAATGCTGAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 17 0.77
16 5 0.23
ACGTcount: A:0.85, C:0.00, G:0.13, T:0.03
Consensus pattern (15 bp):
AGAAAAAAGAAAAAA
Found at i:30741 original size:2 final size:2
Alignment explanation
Indices: 30734--30760 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
30724 CAACAGCCAT
30734 GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA G
30761 CGATCAGTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:32468 original size:2 final size:2
Alignment explanation
Indices: 32451--32485 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
32441 CTTTCTTGGT
* *
32451 TA TA TT TA TG TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
32486 GTCATTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (2 bp):
TA
Found at i:32636 original size:2 final size:2
Alignment explanation
Indices: 32629--32670 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
32619 GAGCAAGAGA
*
32629 AT AT AT AT AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32671 GTATGTATTA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:36366 original size:57 final size:57
Alignment explanation
Indices: 36279--37280 Score: 1189
Period size: 57 Copynumber: 17.8 Consensus size: 57
36269 GAATGTTCAT
*
36279 CCCTTTC-AAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTTAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCA
36335 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCA
* * * *
36392 CTCACTTTCAAAGCCCACAAATCAGTGGCATTCTTTTCAAAG-CC-CAA-TTAGTGGCA
1 C-C-CTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCA
36448 CCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCA
* * *
36504 CTCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAATC--TGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCA
* * *
36559 -CTTTTC-AAGCCCACAAGTCAAT-GCAC-CC-TTCAAAG-CCACAAGTTAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
36610 CTCCTTTCAAAGCCCCACAAGTCAGTGGCACT-CTTTCAAAGCCCACAAATCAATGGCA
1 C-CCTTTCAAAG-CCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCA
* * * * *
36668 CTCTTTCAAAGCCCACAAGTTAATGGCAC-CCTTTTAGAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
36724 CCCTTTCGAAGCCCACAAGTCAGTGGCAC-CCTTTC-GAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCA
* * * * *
36779 CCATTGCGAAGCCCACAATTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCA
* * * * *
36836 CCCTTTTAAAGCCCACACAAGTCAGTGGTACTCCTTTTAAAGCTCACGCAAGTCAGTGGTA
1 CCCTTTCAAAG-CC-CACAAGTCAGTGGCACTCCTTTCAAAGC-C-CACAAGTCAGTGGCA
* *
36897 CCTTTTCAAAG-CCACGAGTCAGTGGCACT-CTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCA
* * *
36952 TCC-TTCAAAGCCCACGAGTTAGTGGCAC-CCTTTCAAAGCCCACACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAG-CC-CACAAGTCAGTGGCA
* * *
37009 CTCTTTCAAAGCCCACGTAAGTCAGTGGCAC-CTTTTCAAAGCCCACGAGTCAGTGGCA
1 CCCTTTCAAAGCCCAC--AAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCA
* * *
37067 CTCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTC-AAGCCCACGAGTCAGTGGTA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCA
* * * *
37122 CCTTTTC-AAGCCCACGAGGCAGTGG-A-ACCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
37176 CTCTTTCAAAGCCCACGA-TCAGTGGCA-TCCTTTCAAAGCCCACGCAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCA--CAAGTCAGTGGCA
* ** * *
37233 CCCTTTTAAAGCCCACGCAAGTCAGTAACACTCTTTTTAAAGCCCACA
1 CCCTTTCAAAGCCCA--CAAGTCAGTGGCACTCCTTTCAAAGCCCACA
37281 TGTGTCAGTG
Statistics
Matches: 820, Mismatches: 85, Indels: 79
0.83 0.09 0.08
Matches are distributed among these distances:
49 7 0.01
50 7 0.01
51 6 0.01
52 4 0.00
53 36 0.04
54 86 0.10
55 155 0.19
56 151 0.18
57 163 0.20
58 76 0.09
59 66 0.08
60 28 0.03
61 35 0.04
ACGTcount: A:0.28, C:0.32, G:0.18, T:0.22
Consensus pattern (57 bp):
CCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCA
Found at i:36771 original size:27 final size:28
Alignment explanation
Indices: 36279--37258 Score: 1177
Period size: 28 Copynumber: 34.9 Consensus size: 28
36269 GAATGTTCAT
36279 CCCTTTC-AAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
36306 CTCCTTTCAAAGCCCACAAGTTAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCA
36335 CCCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
36363 CTCCTTTCAAAGCCCACAAGTCAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCA
*
36392 CTCACTTTCAAAGCCCACAAATCAGTGGCA
1 C-C-CTTTCAAAGCCCACAAGTCAGTGGCA
* * *
36422 TTCTTTTCAAAG-CC-CAA-TTAGTGGCA
1 -CCCTTTCAAAGCCCACAAGTCAGTGGCA
36448 CCCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
36476 CCCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
36504 CTCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
36532 CTCTTTTCAAAGCCCACAAATC--TGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCA
* *
36559 -CTTTTC-AAGCCCACAAGTCAAT-GCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
36584 CCC-TTCAAAG-CCACAAGTTAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
36610 CTCCTTTCAAAGCCCCACAAGTCAGTGGCA
1 C-CCTTTCAAAG-CCCACAAGTCAGTGGCA
* * *
36640 CTCTTTCAAAGCCCACAAATCAATGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* * *
36668 CTCTTTCAAAGCCCACAAGTTAATGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
36696 CCCTTTTAGAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
36724 CCCTTTCGAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
36752 CCCTTTC-GAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* * * *
36779 CCATTGCGAAGCCCACAATTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
36807 CTCTTTTCAAAGCCCACAAGTCAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCA
* *
36836 CCCTTTTAAAGCCCACACAAGTCAGTGGTA
1 CCCTTTCAAAG-CC-CACAAGTCAGTGGCA
* * *
36866 CTCCTTTTAAAGCTCACGCAAGTCAGTGGTA
1 C-CCTTTCAAAGC-C-CACAAGTCAGTGGCA
* *
36897 CCTTTTCAAAG-CCACGAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
36924 CTCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* * *
36952 TCC-TTCAAAGCCCACGAGTTAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
36979 CCCTTTCAAAGCCCACACAAGTCAGTGGCA
1 CCCTTTCAAAG-CC-CACAAGTCAGTGGCA
*
37009 CTCTTTCAAAGCCCACGTAAGTCAGTGGCA
1 CCCTTTCAAAGCCCAC--AAGTCAGTGGCA
* *
37039 CCTTTTCAAAGCCCACGAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
37067 CTCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
37095 CCCTTTC-AAGCCCACGAGTCAGTGGTA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* * *
37122 CCTTTTC-AAGCCCACGAGGCAGTGG-A
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
37148 ACCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
37176 CTCTTTCAAAGCCCACGA-TCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
37203 TCCTTTCAAAGCCCACGCAAGTCAGTGGCA
1 CCCTTTCAAAGCCCA--CAAGTCAGTGGCA
*
37233 CCCTTTTAAAGCCCACGCAAGTCAGT
1 CCCTTTCAAAGCCCA--CAAGTCAGT
37259 AACACTCTTT
Statistics
Matches: 835, Mismatches: 83, Indels: 67
0.85 0.08 0.07
Matches are distributed among these distances:
24 12 0.01
25 31 0.04
26 25 0.03
27 162 0.19
28 314 0.38
29 116 0.14
30 148 0.18
31 27 0.03
ACGTcount: A:0.28, C:0.32, G:0.18, T:0.22
Consensus pattern (28 bp):
CCCTTTCAAAGCCCACAAGTCAGTGGCA
Found at i:37910 original size:20 final size:19
Alignment explanation
Indices: 37885--37955 Score: 79
Period size: 20 Copynumber: 3.6 Consensus size: 19
37875 TACCTTGATG
*
37885 TATCGATACATTTTTCAATA
1 TATCGATACATTTAT-AATA
*
37905 TATCGATACATGTATAAATA
1 TATCGATACATTTAT-AATA
* *
37925 TATCGATATATTCTATAATG
1 TATCGATACATT-TATAATA
37945 TATCGATACAT
1 TATCGATACAT
37956 CTAGTTAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
20 40 0.93
21 3 0.07
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.41
Consensus pattern (19 bp):
TATCGATACATTTATAATA
Done.