Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold841
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: 48382
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.32
Found at i:5571 original size:20 final size:20
Alignment explanation
Indices: 5546--5597 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
5536 AAAATTCCTA
5546 AATGTATCGATACAAAG-AT
1 AATGTATCGATACAAAGAAT
**
5565 CAATGTATCGATACATTGAAT
1 -AATGTATCGATACAAAGAAT
5586 AATGTATCGATA
1 AATGTATCGATA
5598 TGTTTCCTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 27 0.93
21 2 0.07
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAT
Found at i:11509 original size:28 final size:28
Alignment explanation
Indices: 11450--11515 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 28
11440 TTTCACAATC
* *
11450 GGGGATACTCCAACCCCGTTATTTCATT
1 GGGGATACTCCAACCCCATTATTTCATA
*
11478 GGGGATACTCCAACCCCATTA-TTCCTGA
1 GGGGATACTCCAACCCCATTATTTCAT-A
11506 GGGGATACTC
1 GGGGATACTC
11516 AACTCCGCTT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
27 4 0.12
28 30 0.88
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (28 bp):
GGGGATACTCCAACCCCATTATTTCATA
Found at i:11664 original size:78 final size:78
Alignment explanation
Indices: 11480--11674 Score: 206
Period size: 78 Copynumber: 2.5 Consensus size: 78
11470 ATTTCATTGG
* * * *
11480 GGATACTCCAACCCCATTATTCCTGAGGGGATACT-CAA-CTCCGCTTTATTTCTGAAATATTGA
1 GGATACTCCAACCCCGTTATT-TTGAGGGGATACTCCAACCTCCGCTTTATTTCTGAAAAATCGA
* *
11543 TTTCTCACAATTGG
65 TTTCTCACAATCGA
* *
11557 GGATACT-CAACCCCGTTATTTTCGCGGGGATACTCCAACCTCGGAC-TTATTTCT-AAAGCAAT
1 GGATACTCCAACCCCGTTATTTT-GAGGGGATACTCCAACCTCCG-CTTTATTTCTGAAA--AAT
11619 CGATTT-TC-CACATCGA
62 CGATTTCTCACA-ATCGA
*
11635 GGATACTCCAACCCCGTTATTTTGAGGGGATACTCTAACC
1 GGATACTCCAACCCCGTTATTTTGAGGGGATACTCCAACC
11675 CTGATTTTAT
Statistics
Matches: 100, Mismatches: 10, Indels: 15
0.80 0.08 0.12
Matches are distributed among these distances:
75 1 0.01
76 22 0.22
77 15 0.15
78 39 0.39
79 23 0.23
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.31
Consensus pattern (78 bp):
GGATACTCCAACCCCGTTATTTTGAGGGGATACTCCAACCTCCGCTTTATTTCTGAAAAATCGAT
TTCTCACAATCGA
Found at i:21251 original size:20 final size:18
Alignment explanation
Indices: 21228--21269 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
21218 TTTCCTTTTC
*
21228 TGTTTATGTGATCTTCATCA
1 TGTTTA-GTGATCTT-AACA
21248 TG-TTAGTGATCTTAACA
1 TGTTTAGTGATCTTAACA
21265 TGTTT
1 TGTTT
21270 CCATGACCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
17 5 0.25
18 10 0.50
19 3 0.15
20 2 0.10
ACGTcount: A:0.21, C:0.12, G:0.17, T:0.50
Consensus pattern (18 bp):
TGTTTAGTGATCTTAACA
Found at i:21268 original size:17 final size:18
Alignment explanation
Indices: 21235--21268 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
21225 TTCTGTTTAT
*
21235 GTGATCTTCATCATGTTA
1 GTGATCTTCAACATGTTA
21253 GTGATCTT-AACATGTT
1 GTGATCTTCAACATGTT
21269 TCCATGACCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.24, C:0.15, G:0.18, T:0.44
Consensus pattern (18 bp):
GTGATCTTCAACATGTTA
Found at i:25497 original size:61 final size:62
Alignment explanation
Indices: 25340--26093 Score: 953
Period size: 62 Copynumber: 12.4 Consensus size: 62
25330 CTTTTAGCCC
* ** *
25340 TTTAGTCCTCAAAGAGCAAGACGTCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCC
1 TTTAGTCCTCAAAGAGCAGGACACCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCT
* * * *
25402 TTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTAGCA-CT
1 TTTAGTCCTCAAAGAGCAGGACACCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCT
* * * * * *
25463 TTTAGTCCTCAAAAAGCACGACACTTTTTTCTTTTTAAAGCCTACACGAGTTGGCGGCACC-
1 TTTAGTCCTCAAAGAGCAGGACACCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCT
25524 TTTAGTCCTCAAAGAGCA-GACACC-TTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCT
1 TTTAGTCCTCAAAGAGCAGGACACCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCT
* *
25584 TTTAGTCCTCAAAGAGCAGGACACC-TTTTCCTTTTAAAGCCCACACAAGTTAGTGGCACCT
1 TTTAGTCCTCAAAGAGCAGGACACCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCT
* * * * *
25645 TTTAGTCCTCAAAAAGCAGGACACCTTTTTCTTTTCAAAGCCCACACGAGTTGATGGCACCC
1 TTTAGTCCTCAAAGAGCAGGACACCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCT
* * * * * **
25707 TTTAGTCCTTAAAGAGTAGGACGCCTTTTTCTTCTCAAAGCCCACATGAGTTGGTGGCACC-
1 TTTAGTCCTCAAAGAGCAGGACACCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCT
* *
25768 TTTAGTCCTCAAAGAGCAAGACACC-TTTTCCTTTTAAAGCCCACA-AAGTT-GTGGCACCT
1 TTTAGTCCTCAAAGAGCAGGACACCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCT
* *
25827 TTTAGTCCTCAAAAAGTAGGACACCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCT
1 TTTAGTCCTCAAAGAGCAGGACACCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCT
* * * *
25889 TCTAATCATCAAAGAGCAGGACGCC---TTCTTTTTGAAAGCCCACACAAGTTGGTGGCACCT
1 TTTAGTCCTCAAAGAGCAGGACACCTTTTTCTTTTT-AAAGCCCACACAAGTTGGTGGCACCT
* * * * * * *
25949 TTTTGTCCTCAAAGAGCAAGACGCC-ATCTC-CTTTAAAGCCCACACAAGTTGGTGGCACCC
1 TTTAGTCCTCAAAGAGCAGGACACCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCT
* *
26009 TTTAGTCCTCAAAGAGTAGGACACTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA-CT
1 TTTAGTCCTCAAAGAGCAGGACACCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCT
** * *
26070 TCCAGTCCTCAGAGAGCATGACAC
1 TTTAGTCCTCAAAGAGCAGGACAC
26094 TCTCTCCTTT
Statistics
Matches: 604, Mismatches: 75, Indels: 27
0.86 0.11 0.04
Matches are distributed among these distances:
58 8 0.01
59 66 0.11
60 150 0.25
61 185 0.31
62 195 0.32
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.29
Consensus pattern (62 bp):
TTTAGTCCTCAAAGAGCAGGACACCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCT
Found at i:25649 original size:182 final size:183
Alignment explanation
Indices: 25338--26093 Score: 1017
Period size: 182 Copynumber: 4.1 Consensus size: 183
25328 CCCTTTTAGC
* * * *
25338 CCTTTAGTCCTCAAAGAGCAAGACGTCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCCT
1 CCTTTAGTCCTCAAAGAGCAGGAC-ACCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTT
* * * * *
25403 TTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTAGCA-CTTTTA
65 TTAGTCCTCAAAGAGCAAGACACCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTTTA
* * * * *
25467 GTCCTCAAAAAGCACGACACTTTTTTCTTTTTAAAGCCTACACGAGTTGGCGGCA
129 GTCCTCAAAAAGCAGGACACCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA
25522 CCTTTAGTCCTCAAAGAGCA-GACACCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
1 CCTTTAGTCCTCAAAGAGCAGGACACCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
* *
25586 TAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTAGTGGCACCTTTTAGT
66 TAGTCCTCAAAGAGCAAGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGT
* * *
25651 CCTCAAAAAGCAGGACACCTTTTTCTTTTCAAAGCCCACACGAGTTGATGGCA
131 CCTCAAAAAGCAGGACACCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * **
25704 CCCTTTAGTCCTTAAAGAGTAGGACGCCTTTTTCTTCTCAAAGCCCACATGAGTTGGTGGCACC-
1 -CCTTTAGTCCTCAAAGAGCAGGACACC-TTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCT
25768 TTTAGTCCTCAAAGAGCAAGACACCTTTTCCTTTTAAAGCCCACA-AAGTT-GTGGCACCTTTTA
64 TTTAGTCCTCAAAGAGCAAGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTA
*
25831 GTCCTCAAAAAGTAGGACACCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA
129 GTCCTCAAAAAGCAGGACACCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
25886 CCTTCTAATCATCAAAGAGCAGGACGCC--TTCTTTTTGAAAGCCCACACAAGTTGGTGGCACCT
1 CCTT-TAGTCCTCAAAGAGCAGGACACCTTTTCTTTTT-AAAGCCCACACAAGTTGGTGGCACCT
* * * * *
25949 TTTTGTCCTCAAAGAGCAAGACGCCATCTCC-TTTAAAGCCCACACAAGTTGGTGGCACCCTTTA
64 TTTAGTCCTCAAAGAGCAAGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTA
* * *
26013 GTCCTCAAAGAGTAGGACACTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA
129 GTCCTCAAAAAGCAGGACACCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
26068 -CTTCCAGTCCTCAGAGAGCATGACAC
1 CCTT-TAGTCCTCAAAGAGCAGGACAC
26094 TCTCTCCTTT
Statistics
Matches: 516, Mismatches: 47, Indels: 21
0.88 0.08 0.04
Matches are distributed among these distances:
179 6 0.01
180 36 0.07
181 76 0.15
182 272 0.53
183 26 0.05
184 69 0.13
185 31 0.06
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.29
Consensus pattern (183 bp):
CCTTTAGTCCTCAAAGAGCAGGACACCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
TAGTCCTCAAAGAGCAAGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGT
CCTCAAAAAGCAGGACACCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:26236 original size:277 final size:274
Alignment explanation
Indices: 25859--26642 Score: 890
Period size: 277 Copynumber: 2.9 Consensus size: 274
25849 ACCTTTTTCT
* * *
25859 TTTTAAAGCCCACACAAGTTGGTGGCAC-CTTCTAATCATCAAAGAGCAGGACGCCTTCTT--TT
1 TTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCATCAAAGAGCA-GACACCTT-TTCCTT
* * * *
25921 TGAAAGCCCACACAAGTTGGTGGCACCTTTTTGTCCTCAAAGAGCAAGACGCCATCTCCTTTAAA
64 TTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAAGACGCCTTCTCCTTTAAA
* *
25986 GCCCACACAAGTTGGTGGCACCCTT-TAGTCCTCAAAGAGTAGGACACTTTTTTCTTTTTAAAGC
129 GCCCACACAAGTTGGTGGCA-CCTTCTAGTCCTCAAAGAGCAGGA-ACTTTTTTCCTTTTAAAGC
* *
26050 CCACACAAGTTGGTGGCACTTCCAGTCCTCAGAGAGCATGACACTCTCTCCTTTCACCCTTTAGT
192 CCACACAAGTTGGTGGCACTTCCAGTCCTCAAAGAGCAGGACACTCTCTCCTTTCACCCTTTAGT
*
26115 CCTCAAAGAGCAGGATGCC
257 CCTCAAAGAGCAGGACG-C
* *
26134 TTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCCGAACACCTTTTCCTTT
1 TTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCATCAAAGAGCAG-ACACCTTTTCCTTT
* * *
26199 TAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGATGCCTTCTCCTCTTAAA
65 TAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAAGACGCCTTCTCCT-TTAAA
* * * * * * * *
26264 GCCCACACAAGTTAGTGGCACCTTCCAATCCTTAAAGAGCAGGATGC-CTTCTCCTCTTAAAGCC
129 GCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGA-ACTTTTTTCCTTTTAAAGCC
* * ** *
26328 CACACAAGTTGGTGGCACTTCCTAGTCTTCAAAGAGTAGGACGTTCTCTCCTTTCGCCCTTTAGT
193 CACACAAGTTGGTGGCACTTCC-AGTCCTCAAAGAGCAGGACACTCTCTCCTTTCACCCTTTAGT
*
26393 CCTCAAAGTGCAGGACGC
257 CCTCAAAGAGCAGGACGC
** * **
26411 TTTTCAAAGCCCACATTAGTTAGTGGCA-TTTTCTAGTTTTCAAAGAGCATGACA------CCTT
1 TTTT-AAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCATCAAAGAGCA-GACACCTTTTCCTT
* * * * * * *
26469 TTAAAGCCTACATAAGCTGGTGGCACTTTTCTAGTCCTCAAAGAGCAAGACACTTTTTCCTTTTA
64 TTAAAGCCCACACAAGTTGGTGGCAC-CTTCTAGTCCTCAAAGAGCAAGACGCCTTCTCC-TTTA
* * ** *
26534 AAGTCCACACAAGTTGGTGGCATCTTCTAGTCCTCAAAGAGCAGGATGTTTTTTCCTTTCAAAGC
127 AAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGAACTTTTTTCCTTTTAAAGC
* **
26599 CCACACAAGCTGGTGGAACACTTTTAGTCCTCAAAGAGCAGGAC
192 CCACACAAGTTGGTGG--CACTTCCAGTCCTCAAAGAGCAGGAC
26643 GCCTTTTCCT
Statistics
Matches: 430, Mismatches: 65, Indels: 30
0.82 0.12 0.06
Matches are distributed among these distances:
271 27 0.06
272 96 0.22
273 18 0.04
274 5 0.01
275 31 0.07
276 22 0.05
277 120 0.28
278 111 0.26
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.28
Consensus pattern (274 bp):
TTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCATCAAAGAGCAGACACCTTTTCCTTTT
AAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAAGACGCCTTCTCCTTTAAAGC
CCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGAACTTTTTTCCTTTTAAAGCCCAC
ACAAGTTGGTGGCACTTCCAGTCCTCAAAGAGCAGGACACTCTCTCCTTTCACCCTTTAGTCCTC
AAAGAGCAGGACGC
Found at i:26264 original size:61 final size:61
Alignment explanation
Indices: 26112--26368 Score: 330
Period size: 61 Copynumber: 4.3 Consensus size: 61
26102 TTCACCCTTT
* *
26112 AGTCCTCAAAGAGCAGGATG-C--CT--T-TTAAAGCCCACACAAGTTGGTGGCACTTTTCT
1 AGTCCTCAAAGAGCAGGATGCCTTCTCCTCTTAAAGCCCACACAAGTTGGTGGCAC-CTTCC
* * ** * *
26168 AGTCCTCAAAGAGCCGAACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCC
1 AGTCCTCAAAGAGCAGGATGCCTTCTCCTCTTAAAGCCCACACAAGTTGGTGGCACCTTCC
*
26229 AGTCCTCAAAGAGCAGGATGCCTTCTCCTCTTAAAGCCCACACAAGTTAGTGGCACCTTCC
1 AGTCCTCAAAGAGCAGGATGCCTTCTCCTCTTAAAGCCCACACAAGTTGGTGGCACCTTCC
* *
26290 AATCCTTAAAGAGCAGGATGCCTTCTCCTCTTAAAGCCCACACAAGTTGGTGGCA-CTTCC
1 AGTCCTCAAAGAGCAGGATGCCTTCTCCTCTTAAAGCCCACACAAGTTGGTGGCACCTTCC
* *
26350 TAGTCTTCAAAGAGTAGGA
1 -AGTCCTCAAAGAGCAGGA
26369 CGTTCTCTCC
Statistics
Matches: 173, Mismatches: 21, Indels: 9
0.85 0.10 0.04
Matches are distributed among these distances:
56 16 0.09
57 1 0.01
59 1 0.01
60 5 0.03
61 124 0.72
62 26 0.15
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (61 bp):
AGTCCTCAAAGAGCAGGATGCCTTCTCCTCTTAAAGCCCACACAAGTTGGTGGCACCTTCC
Found at i:26475 original size:55 final size:57
Alignment explanation
Indices: 26389--27024 Score: 212
Period size: 62 Copynumber: 10.5 Consensus size: 57
26379 TTTCGCCCTT
* * * * *
26389 TAGTCCTCAAAGTGCAGGAC-GCTTTTCAAAGCCCACATTAGTTAGTGGCA-TTTTC
1 TAGTCCTCAAAGAGCAAGACACCTTTTCAAAGCCCACATAAGCTAGTGGCACTTTTC
** * * *
26444 TAGTTTTCAAAGAGCATGACACCTTTT-AAAGCCTACATAAGCTGGTGGCACTTTTC
1 TAGTCCTCAAAGAGCAAGACACCTTTTCAAAGCCCACATAAGCTAGTGGCACTTTTC
* * * * * *
26500 TAGTCCTCAAAGAGCAAGACACTTTTTCCTTTTAAAGTCCACACAAGTTGGTGGCA-TCTTC
1 TAGTCCTCAAAGAGCAAGACACCTTTT-C----AAAGCCCACATAAGCTAGTGGCACTTTTC
*** * *
26561 TAGTCCTCAAAGAGCAGGATGTTTTTTCC-TTTCAAAGCCCACACAAGCTGGTGGAACAC-TTT-
1 TAGTCCTCAAAGAGCA--A-G---ACACCTTTTCAAAGCCCACATAAGCTAGTGG--CACTTTTC
* * * * * *
26623 TAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCATATAGGTTGGTGGCACTTTTC
1 TAGTCCTCAAAGAGCAAGACACCTTTT-C----AAAGCCCACATAAGCTAGTGGCACTTTTC
* * * * * * * *
26685 GAGTCCTCGAAGAGCAGGATACCTTTTTCTTTTCAAAGCCTACACAAGCTGGTGGCACCCTTT-
1 TAGTCCTCAAAGAGCAAGACA-C-----CTTTTCAAAGCCCACATAAGCTAGTGGCA-CTTTTC
* * * * * * *
26748 TAGTCCTCAAAGAGTAGGAAACCTTTTCCTTTTAAAGCCCACACAGGTTGGTGGCACTTTTC
1 TAGTCCTCAAAGAGCAAGACACCTTTT-C----AAAGCCCACATAAGCTAGTGGCACTTTTC
* * * * *
26810 TAGTCCTCAAAGAGTAGGACATCTTTTTCTTTTCAAAGCCCACACAAGCTGGTGGCACCCTTT-
1 TAGTCCTCAAAGAGCAAGACA-C-----CTTTTCAAAGCCCACATAAGCTAGTGGCA-CTTTTC
* * ** * * *
26873 TAGTCCTCAAAGAGTAGGATGCCTTTTCCTTTTAAAGCCCACATAGGTTGGTGGCACTTTTC
1 TAGTCCTCAAAGAGCAAGACACCTTTT-C----AAAGCCCACATAAGCTAGTGGCACTTTTC
* * ** * *
26935 TAGTCCTCAAAGAGTAGGACACCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACTTTT-
1 TAGTCCTCAAAGAGCAAGACA-C-----CTTTTCAAAGCCCACATAAGCTAGTGGCACTTTTC
* *
26997 TAGTCCTCAAAAAGCAAGACGCCTTTTC
1 TAGTCCTCAAAGAGCAAGACACCTTTTC
27025 CTTTTCTCCT
Statistics
Matches: 454, Mismatches: 70, Indels: 113
0.71 0.11 0.18
Matches are distributed among these distances:
55 35 0.08
56 41 0.09
57 13 0.03
58 3 0.01
59 1 0.00
60 3 0.01
61 51 0.11
62 167 0.37
63 108 0.24
64 9 0.02
65 1 0.00
66 3 0.01
67 4 0.01
68 15 0.03
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.31
Consensus pattern (57 bp):
TAGTCCTCAAAGAGCAAGACACCTTTTCAAAGCCCACATAAGCTAGTGGCACTTTTC
Found at i:26651 original size:62 final size:60
Alignment explanation
Indices: 26465--27029 Score: 599
Period size: 62 Copynumber: 9.1 Consensus size: 60
26455 GAGCATGACA
* * * * *
26465 CCTTTTAAAGCCTACATAAGCTGGTGGCACTTTTCTAGTCCTCAAAGAGCAAGACACTTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCAC-TTT-TAGTCCTCAAAGAGCAGGACACCTTTT
* * ****
26527 CCTTTTAAAGTCCACACAAGTTGGTGGCATCTTCTAGTCCTCAAAGAGCAGGATGTTTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTTAGTCCTCAAAGAGCAGGACACCTTTT
* * *
26588 CCTTTCAAAGCCCACACAAGCTGGTGGAACACTTTTAGTCCTCAAAGAGCAGGACGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGG--CACTTTTAGTCCTCAAAGAGCAGGACACCTTTT
* * * * *
26650 CCTTTTAAAGCCCATATAGGTTGGTGGCACTTTTCGAGTCCTCGAAGAGCAGGATACCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTT--AGTCCTCAAAGAGCAGGACACCTTTT
* * * * *
26712 TCTTTTCAAAGCCTACACAAGCTGGTGGCACCCTTTTAGTCCTCAAAGAGTAGGAAACCTTTT
1 CCTTTT-AAAGCCCACACAAGTTGGTGGCA--CTTTTAGTCCTCAAAGAGCAGGACACCTTTT
* * *
26775 CCTTTTAAAGCCCACACAGGTTGGTGGCACTTTTCTAGTCCTCAAAGAGTAGGACATCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCAC-TTT-TAGTCCTCAAAGAGCAGGACACCTTTT
* * * **
26837 TCTTTTCAAAGCCCACACAAGCTGGTGGCACCCTTTTAGTCCTCAAAGAGTAGGATGCCTTTT
1 CCTTTT-AAAGCCCACACAAGTTGGTGGCA--CTTTTAGTCCTCAAAGAGCAGGACACCTTTT
* * *
26900 CCTTTTAAAGCCCACATAGGTTGGTGGCACTTTTCTAGTCCTCAAAGAGTAGGACACCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCAC-TTT-TAGTCCTCAAAGAGCAGGACACCTTTT
* * * * *
26962 TCTTTTCAAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCTCAAAAAGCAAGACGCCTTTT
1 CCTTTT-AAAGCCCACACAAGTTGGTGGCAC-TTTTAGTCCTCAAAGAGCAGGACACCTTTT
27024 CCTTTT
1 CCTTTT
27030 CTCCTTTGCC
Statistics
Matches: 427, Mismatches: 60, Indels: 32
0.82 0.12 0.06
Matches are distributed among these distances:
60 9 0.02
61 53 0.12
62 232 0.54
63 124 0.29
64 3 0.01
65 6 0.01
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (60 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTAGTCCTCAAAGAGCAGGACACCTTTT
Found at i:26753 original size:125 final size:125
Alignment explanation
Indices: 26466--27029 Score: 769
Period size: 125 Copynumber: 4.5 Consensus size: 125
26456 AGCATGACAC
* * * * * *
26466 CTTTT-AAAGCCTACATAAGCTGGTGGCA-CTTTTCTAGTCCTCAAAGAGCAAGACACTTTTTCC
1 CTTTTCAAAGCCCACACAAGCTGGTGGCACCCTTT-TAGTCCTCAAAGAGCAGGACGCCTTTTCC
* * * ***
26529 TTTTAAAGTCCACACAAGTTGGTGGCA-TCTTCTAGTCCTCAAAGAGCAGGA-TGTTTTTT
65 TTTTAAAGCCCACACAGGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACACCTTTTT
* * *
26588 CCTTTCAAAGCCCACACAAGCTGGTGGAACACTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCT
1 CTTTTCAAAGCCCACACAAGCTGGTGGCACCCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCT
* * * * *
26653 TTTAAAGCCCATATAGGTTGGTGGCACTTTTCGAGTCCTCGAAGAGCAGGATACCTTTTT
66 TTTAAAGCCCACACAGGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACACCTTTTT
* * **
26713 CTTTTCAAAGCCTACACAAGCTGGTGGCACCCTTTTAGTCCTCAAAGAGTAGGAAACCTTTTCCT
1 CTTTTCAAAGCCCACACAAGCTGGTGGCACCCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCT
* *
26778 TTTAAAGCCCACACAGGTTGGTGGCACTTTTCTAGTCCTCAAAGAGTAGGACATCTTTTT
66 TTTAAAGCCCACACAGGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACACCTTTTT
* *
26838 CTTTTCAAAGCCCACACAAGCTGGTGGCACCCTTTTAGTCCTCAAAGAGTAGGATGCCTTTTCCT
1 CTTTTCAAAGCCCACACAAGCTGGTGGCACCCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCT
* *
26903 TTTAAAGCCCACATAGGTTGGTGGCACTTTTCTAGTCCTCAAAGAGTAGGACACCTTTTT
66 TTTAAAGCCCACACAGGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACACCTTTTT
* * * * *
26963 CTTTTCAAAGCCCACACGAGTTGGTGGCA-CTTTTTAGTCCTCAAAAAGCAAGACGCCTTTTCCT
1 CTTTTCAAAGCCCACACAAGCTGGTGGCACCCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCT
27027 TTT
66 TTT
27030 CTCCTTTGCC
Statistics
Matches: 393, Mismatches: 45, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
122 4 0.01
123 69 0.18
124 57 0.15
125 263 0.67
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (125 bp):
CTTTTCAAAGCCCACACAAGCTGGTGGCACCCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCT
TTTAAAGCCCACACAGGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACACCTTTTT
Found at i:27178 original size:42 final size:43
Alignment explanation
Indices: 27057--27224 Score: 189
Period size: 42 Copynumber: 3.8 Consensus size: 43
27047 GCAGGACGCC
* *
27057 TTTTCCTTTTTTCTTTTGTCCTCAAAGAGCAGGATGCACTTCA
1 TTTTCCTTTTTTCTTTTGTCCTCAAAGAGTAGGATGCACTTTA
*
27100 -TTTCCTTCTTTTCCCTTTTAGTTCTCAAAGAGTAGGATGCACTTTA
1 TTTTCCTT-TTTT--CTTTT-GTCCTCAAAGAGTAGGATGCACTTTA
* *
27146 TTTTCC-TTTTTCTTTTGTCCTTAAAGAGTAGGATGCA-TTTCG
1 TTTTCCTTTTTTCTTTTGTCCTCAAAGAGTAGGATGCACTTT-A
* * *
27188 TTTTCCTTTTTTTCCTTTGTCCTCAAAAAGCAGGATG
1 TTTTCC-TTTTTTCTTTTGTCCTCAAAGAGTAGGATG
27225 TACTCTTTTC
Statistics
Matches: 107, Mismatches: 10, Indels: 15
0.81 0.08 0.11
Matches are distributed among these distances:
41 3 0.03
42 32 0.30
43 9 0.08
44 25 0.23
45 9 0.08
46 24 0.22
47 5 0.05
ACGTcount: A:0.18, C:0.21, G:0.14, T:0.46
Consensus pattern (43 bp):
TTTTCCTTTTTTCTTTTGTCCTCAAAGAGTAGGATGCACTTTA
Found at i:27266 original size:34 final size:34
Alignment explanation
Indices: 27193--27272 Score: 87
Period size: 34 Copynumber: 2.4 Consensus size: 34
27183 TTTCGTTTTC
*
27193 CTTT-TTTTCCTTTGTCCTCAAAAAGCAGGATGTA
1 CTTTCTTTTCCTTTGTCCTCAAAAAGCAGGA-GCA
*
27227 C--TCTTTTCACTTTGTCCTCATAAAGCAGGA-CA
1 CTTTCTTTTC-CTTTGTCCTCAAAAAGCAGGAGCA
*
27259 CTTTCTTTTTCTTT
1 CTTTCTTTTCCTTT
27273 CTTCCTTTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
32 3 0.08
33 9 0.23
34 27 0.69
ACGTcount: A:0.20, C:0.24, G:0.11, T:0.45
Consensus pattern (34 bp):
CTTTCTTTTCCTTTGTCCTCAAAAAGCAGGAGCA
Found at i:27953 original size:24 final size:24
Alignment explanation
Indices: 27926--27975 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
27916 ATTTGTATCG
* *
27926 ATACATTGTTCATTTTATCGATAC
1 ATACATTATTCATTGTATCGATAC
27950 ATACATTATTCATTGTATCGATAC
1 ATACATTATTCATTGTATCGATAC
27974 AT
1 AT
27976 TCTAGGTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.08, T:0.44
Consensus pattern (24 bp):
ATACATTATTCATTGTATCGATAC
Found at i:27975 original size:20 final size:20
Alignment explanation
Indices: 27918--27976 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 20
27908 TTTTCACAAT
*
27918 TTGTATCGATACATTGTTCA
1 TTGTATCGATACATTATTCA
*
27938 TTTTATCGATACATACATTATTCA
1 TTGTATCG----ATACATTATTCA
27962 TTGTATCGATACATT
1 TTGTATCGATACATT
27977 CTAGGTTTCC
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
20 14 0.44
24 18 0.56
ACGTcount: A:0.29, C:0.15, G:0.10, T:0.46
Consensus pattern (20 bp):
TTGTATCGATACATTATTCA
Found at i:30480 original size:28 final size:28
Alignment explanation
Indices: 30421--30491 Score: 90
Period size: 28 Copynumber: 2.5 Consensus size: 28
30411 CACAATCGGG
* * *
30421 GATACTCCAACCCCGTTATTTCATTGGG
1 GATACTCCAACCCCGTTATTCCATAGGA
30449 GATACTCCAACCCCGTTATTCCCA-AGGA
1 GATACTCCAACCCCGTTATT-CCATAGGA
*
30477 GATACCCCAACCCCG
1 GATACTCCAACCCCG
30492 GCTTTATTTC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
28 36 0.95
29 2 0.05
ACGTcount: A:0.25, C:0.37, G:0.15, T:0.23
Consensus pattern (28 bp):
GATACTCCAACCCCGTTATTCCATAGGA
Found at i:30627 original size:79 final size:79
Alignment explanation
Indices: 30446--30646 Score: 271
Period size: 79 Copynumber: 2.5 Consensus size: 79
30436 TTATTTCATT
** * * * * *
30446 GGGGATACTCCAACCCCGTTATTCCCAAGGAGATACCCCAACCCCGGCTTTATTTCTGAAATATT
1 GGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCCTTATTTCTGAAACATT
*
30511 GATTTCTCACAATT
66 GATTTCTCACAATC
* *
30525 GGAGATACTCCAACCCCGTTATTTTCGCGGGGATACTCCAACCCCGGCCTTATTTCT-AAAGCAT
1 GGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCCTTATTTCTGAAA-CAT
30589 TGATTT-TCCACAATC
65 TGATTTCT-CACAATC
*
30604 GGGGATACTCCAACCCCGTTATTTTTGAGGGGATACTCCAACC
1 GGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACC
30647 TCGATTAGAA
Statistics
Matches: 107, Mismatches: 13, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
78 4 0.04
79 103 0.96
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.28
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCCTTATTTCTGAAACATT
GATTTCTCACAATC
Found at i:31700 original size:20 final size:21
Alignment explanation
Indices: 31675--31725 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
31665 ACATAACTAT
31675 TGTATTGATACAACAA-GGA-A
1 TGTATTGATAC-ACAATGGATA
* *
31695 TGTATTGAAACACAATTGATA
1 TGTATTGATACACAATGGATA
31716 TGTATTGATA
1 TGTATTGATA
31726 TTATGTCCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
19 4 0.15
20 12 0.46
21 10 0.38
ACGTcount: A:0.41, C:0.08, G:0.18, T:0.33
Consensus pattern (21 bp):
TGTATTGATACACAATGGATA
Found at i:32561 original size:32 final size:32
Alignment explanation
Indices: 32525--32607 Score: 94
Period size: 32 Copynumber: 2.6 Consensus size: 32
32515 TATTAGCGAC
* *
32525 GAAATTTTCCATAGCATATAATTACTCGCAAT
1 GAAATTTTCCATAGCAAATAATTACTAGCAAT
** * * *
32557 GAAATTTTTTATATCAAATAATTATTAGTAAT
1 GAAATTTTCCATAGCAAATAATTACTAGCAAT
*
32589 GGAATTTTCCATAGCAAAT
1 GAAATTTTCCATAGCAAAT
32608 TTGCTATGGA
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.39
Consensus pattern (32 bp):
GAAATTTTCCATAGCAAATAATTACTAGCAAT
Found at i:32640 original size:30 final size:30
Alignment explanation
Indices: 32606--32669 Score: 94
Period size: 30 Copynumber: 2.1 Consensus size: 30
32596 TCCATAGCAA
*
32606 ATTTGCTATGGAAAATTCT-ATGCTAATAAT
1 ATTTGCTAT-GAAAATTCTAATGATAATAAT
*
32636 ATTTGCTATGAAAATTTTAATGATAATAAT
1 ATTTGCTATGAAAATTCTAATGATAATAAT
32666 ATTT
1 ATTT
32670 TTATAAGTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 8 0.26
30 23 0.74
ACGTcount: A:0.39, C:0.06, G:0.11, T:0.44
Consensus pattern (30 bp):
ATTTGCTATGAAAATTCTAATGATAATAAT
Found at i:33208 original size:11 final size:11
Alignment explanation
Indices: 33177--33240 Score: 55
Period size: 11 Copynumber: 6.2 Consensus size: 11
33167 TAGACGATTG
33177 TAATACAATTA
1 TAATACAATTA
*
33188 T-AT-TAATTA
1 TAATACAATTA
33197 TAATACAATTA
1 TAATACAATTA
* *
33208 TAATGCAAATA
1 TAATACAATTA
* *
33219 T-ATA-ACTTG
1 TAATACAATTA
33228 TAATACAATTA
1 TAATACAATTA
33239 TA
1 TA
33241 TTTATAATTG
Statistics
Matches: 39, Mismatches: 10, Indels: 8
0.68 0.18 0.14
Matches are distributed among these distances:
9 9 0.23
10 9 0.23
11 21 0.54
ACGTcount: A:0.50, C:0.08, G:0.03, T:0.39
Consensus pattern (11 bp):
TAATACAATTA
Found at i:33221 original size:31 final size:31
Alignment explanation
Indices: 33177--33240 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
33167 TAGACGATTG
*
33177 TAATACAATTATATTAA-TTATAATACAATTA
1 TAATACAAATATA-TAACTTATAATACAATTA
* *
33208 TAATGCAAATATATAACTTGTAATACAATTA
1 TAATACAAATATATAACTTATAATACAATTA
33239 TA
1 TA
33241 TTTATAATTG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 3 0.10
31 26 0.90
ACGTcount: A:0.50, C:0.08, G:0.03, T:0.39
Consensus pattern (31 bp):
TAATACAAATATATAACTTATAATACAATTA
Found at i:35547 original size:13 final size:13
Alignment explanation
Indices: 35525--35554 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
35515 GATACATGGC
35525 ACATTATATCGAT
1 ACATTATATCGAT
*
35538 ACATTGTATCGAT
1 ACATTATATCGAT
35551 ACAT
1 ACAT
35555 AATGAATTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.37
Consensus pattern (13 bp):
ACATTATATCGAT
Found at i:38823 original size:21 final size:22
Alignment explanation
Indices: 38799--38848 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
38789 ATCAAATCTT
* *
38799 CTTCAAATTTCTT-ATTTTTCA
1 CTTCAAAATACTTCATTTTTCA
38820 CTTCAAAATACTTCATTTTTCA
1 CTTCAAAATACTTCATTTTTCA
38842 --TCAAAAT
1 CTTCAAAAT
38849 CATCAACAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 7 0.27
21 11 0.42
22 8 0.31
ACGTcount: A:0.32, C:0.20, G:0.00, T:0.48
Consensus pattern (22 bp):
CTTCAAAATACTTCATTTTTCA
Found at i:40364 original size:13 final size:13
Alignment explanation
Indices: 40346--40370 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
40336 CATTATGCTT
40346 TGTATCGATACAA
1 TGTATCGATACAA
40359 TGTATCGATACA
1 TGTATCGATACA
40371 TGTTCATTGT
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:40370 original size:33 final size:32
Alignment explanation
Indices: 40325--40389 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
40315 ACACACCTAG
*
40325 ATGTATCAATACAT-TATGCTTTGTATCGATACA
1 ATGTATCAATACATGT-T-CATTGTATCGATACA
*
40358 ATGTATCGATACATGTTCATTGTATCGATACA
1 ATGTATCAATACATGTTCATTGTATCGATACA
40390 TGGATAATTG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 14 0.48
33 14 0.48
34 1 0.03
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.38
Consensus pattern (32 bp):
ATGTATCAATACATGTTCATTGTATCGATACA
Found at i:40401 original size:20 final size:20
Alignment explanation
Indices: 40359--40411 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
40349 ATCGATACAA
* *
40359 TGTATCGATACAT-GTTCAT
1 TGTATCGATACATGGATAAT
40378 TGTATCGATACATGGATAAT
1 TGTATCGATACATGGATAAT
40398 TGTATCGATACATG
1 TGTATCGATACATG
40412 AAACTGGCAG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 13 0.42
20 18 0.58
ACGTcount: A:0.30, C:0.13, G:0.19, T:0.38
Consensus pattern (20 bp):
TGTATCGATACATGGATAAT
Found at i:40465 original size:20 final size:20
Alignment explanation
Indices: 40440--40493 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
40430 CTACCACTGT
40440 TTGTATCGATACATGA-CACA
1 TTGTATCGATACATGATCA-A
*
40460 TTGTATCGATACATGATGAA
1 TTGTATCGATACATGATCAA
*
40480 TTTTATCGATACAT
1 TTGTATCGATACAT
40494 TGCTTCAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (20 bp):
TTGTATCGATACATGATCAA
Found at i:40558 original size:62 final size:66
Alignment explanation
Indices: 40461--40627 Score: 234
Period size: 72 Copynumber: 2.5 Consensus size: 66
40451 CATGACACAT
* *
40461 TGTATCGATACATGATGAATTTTATCGATACATTGC-T-T-C-AAACGGCTATAATTTCAAATGC
1 TGTATCGATACATTATGAATTGTATCGATACATTGCTTATGCTAAACGGCTATAATTTCAAATGC
40522 A
66 A
40523 TGTATCGATACATTATGAATTGTATCGATACATTGCTTCAAATGGCTGTAAACGGCTATAATTTC
1 TGTATCGATACATTATGAATTGTATCGATACATTGCTT---AT-GC--TAAACGGCTATAATTTC
40588 AAATGCA
60 AAATGCA
40595 TGTATCGATACATTATGAATTGTATCGATACAT
1 TGTATCGATACATTATGAATTGTATCGATACAT
40628 AGCTACAGGA
Statistics
Matches: 93, Mismatches: 2, Indels: 10
0.89 0.02 0.10
Matches are distributed among these distances:
62 34 0.37
63 1 0.01
67 1 0.01
69 1 0.01
72 56 0.60
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.36
Consensus pattern (66 bp):
TGTATCGATACATTATGAATTGTATCGATACATTGCTTATGCTAAACGGCTATAATTTCAAATGC
A
Found at i:44970 original size:13 final size:13
Alignment explanation
Indices: 44952--44976 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44942 ACAACACTTA
44952 TGTATCGATACAT
1 TGTATCGATACAT
44965 TGTATCGATACA
1 TGTATCGATACA
44977 AATTGTTGAA
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):
TGTATCGATACAT
Found at i:47612 original size:22 final size:20
Alignment explanation
Indices: 47564--47636 Score: 76
Period size: 20 Copynumber: 3.5 Consensus size: 20
47554 CAAGAAAATG
* * *
47564 TATCGATACATTAATAAATG
1 TATCGATACATTTATAATTA
47584 TATCGATACATGCTTCA-AATTA
1 TATCGATACAT--TT-ATAATTA
*
47606 TATCGATACATTTATCATTA
1 TATCGATACATTTATAATTA
47626 TATCGATACAT
1 TATCGATACAT
47637 ACAGGCAAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
19 1 0.02
20 28 0.62
22 15 0.33
23 1 0.02
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (20 bp):
TATCGATACATTTATAATTA
Done.