Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01011123.1 Corchorus olitorius cultivar O-4 contig11156, whole genome shotgun sequence
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: 48029
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Found at i:1226 original size:252 final size:249
Alignment explanation
Indices: 756--1256 Score: 869
Period size: 252 Copynumber: 2.0 Consensus size: 249
746 TATTTTTTTA
756 AAAATAAATTTCAATAAAATATATTTAAAAAATATTTAATTTTTATTCCACGTGTCACCTGCCAC
1 AAAATAAATTTCAATAAAATATATTTAAAAAATATTTAATTTTTATTCCACGTGTCACCTGCCAC
* * **
821 GTCAGCAAAAAAAGACGGTGTTAGTGTCACGTCAGCATATTTGACGGGTCTGTCACGGCATGCTA
66 GTCAGCAAAAAAAGACGGTGCTAGTGCCACGTCAGCATATTTGACGGGTCTGTCACGGCACACTA
* *
886 ACGTGAGGGACCTCGGGTGATAGGTTCTGATAGTAGAGGGACGAATTTGTAGGAAAAAAAAGTAC
131 ACGTGAGAGACCTCGGGTGATAGGTTCTGATAGTAGAGGGACGAATTTGTAGAAAAAAAAAGTAC
* *
951 AGGGACCAAAATCAACATTTCGTATAGTACAGGGACCTCCCGGGTACTTTTACC
196 AGAGACCAAAATCAACATTTCGTATAGTACAGGGACCTCCCAGGTACTTTTACC
1005 AAAATAAATTTCAATAAAATAAAATATATTAAAAAATATTTAATTTTTATTCCACGTGTCACCTG
1 AAAATAAATTTCAATAAAAT---ATAT-TTAAAAAATATTTAATTTTTATTCCACGTGTCACCTG
*
1070 CCACGTCAGC-AAAAAAGACGGTGCTAGTGCCACGTCAGCATATTTGATGGGTCTGTCACGGCAC
62 CCACGTCAGCAAAAAAAGACGGTGCTAGTGCCACGTCAGCATATTTGACGGGTCTGTCACGGCAC
*
1134 ACTAACGTGAGAGACCTTGGGTGATAGGTTCTGATAGTAGAGGGACGAATTTGTAGAAAAAAAAA
127 ACTAACGTGAGAGACCTCGGGTGATAGGTTCTGATAGTAGAGGGACGAATTTGTAGAAAAAAAAA
1199 GTACAGAGACCAAAATCAACATTTCGTATAGTACAGGGACCTCCCAGGTACTTTTACC
192 GTACAGAGACCAAAATCAACATTTCGTATAGTACAGGGACCTCCCAGGTACTTTTACC
1257 TAACATAATA
Statistics
Matches: 238, Mismatches: 10, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
249 20 0.08
252 171 0.72
253 47 0.20
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.27
Consensus pattern (249 bp):
AAAATAAATTTCAATAAAATATATTTAAAAAATATTTAATTTTTATTCCACGTGTCACCTGCCAC
GTCAGCAAAAAAAGACGGTGCTAGTGCCACGTCAGCATATTTGACGGGTCTGTCACGGCACACTA
ACGTGAGAGACCTCGGGTGATAGGTTCTGATAGTAGAGGGACGAATTTGTAGAAAAAAAAAGTAC
AGAGACCAAAATCAACATTTCGTATAGTACAGGGACCTCCCAGGTACTTTTACC
Found at i:6131 original size:13 final size:13
Alignment explanation
Indices: 6113--6142 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
6103 CATCATCATG
6113 TTATTATAAATTA
1 TTATTATAAATTA
*
6126 TTATTATTAATTA
1 TTATTATAAATTA
6139 TTAT
1 TTAT
6143 AGGGTTATCA
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTATTATAAATTA
Found at i:15056 original size:31 final size:31
Alignment explanation
Indices: 15021--15080 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
15011 AATATTTTGA
* *
15021 TTTTGGTAAGACTTTATATGCACTAATTTTT
1 TTTTGGCAAGACTTTACATGCACTAATTTTT
* * *
15052 TTTTGGCGATATTTTACATGCACTAATTT
1 TTTTGGCAAGACTTTACATGCACTAATTT
15081 AAACACTATG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.25, C:0.12, G:0.13, T:0.50
Consensus pattern (31 bp):
TTTTGGCAAGACTTTACATGCACTAATTTTT
Found at i:18459 original size:29 final size:28
Alignment explanation
Indices: 18427--18481 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
18417 TCCAAATTGC
*
18427 AAGTTCAGGGGACGAAACGTCCAAAATTA
1 AAGTTCAGGGGACAAAACGT-CAAAATTA
* *
18456 AAGTTTAGGGGGCAAAACGTCAAAAT
1 AAGTTCAGGGGACAAAACGTCAAAAT
18482 CGTACAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 6 0.26
29 17 0.74
ACGTcount: A:0.42, C:0.15, G:0.25, T:0.18
Consensus pattern (28 bp):
AAGTTCAGGGGACAAAACGTCAAAATTA
Found at i:25206 original size:24 final size:22
Alignment explanation
Indices: 25160--25209 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
25150 TTTTGCTTCT
*
25160 TTTTTTTTTTTTTGAGTGTCAA
1 TTTTTTTTTTTTTGAGTGGCAA
25182 TTTTTTTTTTTTTGAGTTGGGCAA
1 TTTTTTTTTTTTTGAG-T-GGCAA
25206 TTTT
1 TTTT
25210 ATTAAATTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 16 0.64
23 1 0.04
24 8 0.32
ACGTcount: A:0.12, C:0.04, G:0.16, T:0.68
Consensus pattern (22 bp):
TTTTTTTTTTTTTGAGTGGCAA
Found at i:27442 original size:29 final size:30
Alignment explanation
Indices: 27403--27476 Score: 80
Period size: 29 Copynumber: 2.5 Consensus size: 30
27393 CATTGCGTCA
27403 AGGACATTTTGTCCCT-TGAACTT-CAAATC
1 AGGACATTTTG-CCCTATGAACTTCCAAATC
* *
27432 AGGATATTTTGCTCTATGAACTTCCAAATTC
1 AGGACATTTTGCCCTATGAACTTCCAAA-TC
* *
27463 AAGACATTTCGCCC
1 AGGACATTTTGCCC
27477 CTTAAACTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
28 3 0.08
29 17 0.47
30 4 0.11
31 12 0.33
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (30 bp):
AGGACATTTTGCCCTATGAACTTCCAAATC
Found at i:32071 original size:18 final size:19
Alignment explanation
Indices: 32045--32082 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
32035 GCCCACAACA
*
32045 TCAATTCTCATTCTCAATC
1 TCAATTCTCAATCTCAATC
*
32064 TCAA-TCTCAATCTGAATC
1 TCAATTCTCAATCTCAATC
32082 T
1 T
32083 GCTCAGTCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.29, C:0.29, G:0.03, T:0.39
Consensus pattern (19 bp):
TCAATTCTCAATCTCAATC
Found at i:33038 original size:48 final size:49
Alignment explanation
Indices: 32986--33088 Score: 199
Period size: 49 Copynumber: 2.1 Consensus size: 49
32976 TGGACTTGCT
32986 TAATTATGCC-TTGATCACTTGTAAAATTAGGACCTACGTATTTTCATA
1 TAATTATGCCTTTGATCACTTGTAAAATTAGGACCTACGTATTTTCATA
33034 TAATTATGCCTTTGATCACTTGTAAAATTAGGACCTACGTATTTTCATA
1 TAATTATGCCTTTGATCACTTGTAAAATTAGGACCTACGTATTTTCATA
33083 TAATTA
1 TAATTA
33089 AGAATTTAAG
Statistics
Matches: 54, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
48 10 0.19
49 44 0.81
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.41
Consensus pattern (49 bp):
TAATTATGCCTTTGATCACTTGTAAAATTAGGACCTACGTATTTTCATA
Found at i:34701 original size:17 final size:17
Alignment explanation
Indices: 34679--34712 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
34669 TTACCTCCCC
34679 AGCCTAACTAAAAGAGA
1 AGCCTAACTAAAAGAGA
*
34696 AGCCTAACTAGAAGAGA
1 AGCCTAACTAAAAGAGA
34713 GATAATAGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.18, G:0.21, T:0.12
Consensus pattern (17 bp):
AGCCTAACTAAAAGAGA
Found at i:35133 original size:2 final size:2
Alignment explanation
Indices: 35128--35248 Score: 88
Period size: 2 Copynumber: 65.5 Consensus size: 2
35118 ATAAAATTAA
35128 AT AT AT AT -T AT AT AT A- AT A- AT A- AT AT -T AT AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
35164 A- AT AT -T AC AT AT AT AT A- AT -T AT AT AT A- AT A- AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
35199 AT AT AT CT AT AT CT AT AT CT AT AT ACT AT AT AT GAT AT AT ACT
1 AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT -AT AT AT A-T
35242 AT AT AT A
1 AT AT AT A
35249 AAAGTACGAA
Statistics
Matches: 95, Mismatches: 8, Indels: 32
0.70 0.06 0.24
Matches are distributed among these distances:
1 13 0.14
2 76 0.80
3 6 0.06
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.45
Consensus pattern (2 bp):
AT
Found at i:35184 original size:29 final size:27
Alignment explanation
Indices: 35107--35204 Score: 101
Period size: 29 Copynumber: 3.5 Consensus size: 27
35097 GAACCGATCA
*
35107 AATATTAATATATAAAATTAAATATATAT
1 AATATTAATATAT-AAATTATATATA-AT
*
35136 TATATATAATA-ATAATATTATATATAAT
1 AATAT-TAATATATAA-ATTATATATAAT
35164 AATATTACATATATATAATTATATATAAT
1 AATATTA-ATATATA-AATTATATATAAT
*
35193 AATAAT-ATATAT
1 AATATTAATATAT
35205 CTATATCTAT
Statistics
Matches: 60, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
27 8 0.13
28 11 0.18
29 35 0.58
30 6 0.10
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (27 bp):
AATATTAATATATAAATTATATATAAT
Found at i:35192 original size:44 final size:43
Alignment explanation
Indices: 35107--35204 Score: 128
Period size: 44 Copynumber: 2.3 Consensus size: 43
35097 GAACCGATCA
*
35107 AATATTA-ATATATAAAATTAAATATATATTATATATAATAAT
1 AATATTATATATATAAAATTAAATATATATAATATATAATAAT
* *
35149 AATATTATATATAATAATATTACATATATATAAT-TATATATAAT
1 AATATTATATAT-ATAAAATTAAATATATATAATATATA-ATAAT
*
35193 AATAATATATAT
1 AATATTATATAT
35205 CTATATCTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
42 7 0.14
43 8 0.16
44 34 0.69
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (43 bp):
AATATTATATATATAAAATTAAATATATATAATATATAATAAT
Found at i:35215 original size:29 final size:28
Alignment explanation
Indices: 35150--35249 Score: 103
Period size: 29 Copynumber: 3.5 Consensus size: 28
35140 TATAATAATA
* *
35150 ATATTATATATAATAATATTACATATAT
1 ATATTATATATAATAATAATATATATAT
*
35178 ATAATTATATATAATAATAATATATATCT
1 AT-ATTATATATAATAATAATATATATAT
* *
35207 ATATCTATATCTATATACT-ATATATGATAT
1 ATAT-TATATATA-ATAATAATATAT-ATAT
*
35237 ATACTATATATAA
1 ATATTATATATAA
35250 AAGTACGAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
28 5 0.08
29 45 0.75
30 10 0.17
ACGTcount: A:0.48, C:0.06, G:0.01, T:0.45
Consensus pattern (28 bp):
ATATTATATATAATAATAATATATATAT
Found at i:35216 original size:16 final size:14
Alignment explanation
Indices: 35128--35248 Score: 63
Period size: 13 Copynumber: 8.5 Consensus size: 14
35118 ATAAAATTAA
35128 ATATATATTATA-T
1 ATATATATTATACT
* *
35141 ATA-ATAATAATATT
1 ATATAT-ATTATACT
* *
35155 ATATATAATAATATT
1 ATATAT-ATTATACT
* *
35170 ACATATA-TATAAT
1 ATATATATTATACT
* *
35183 -TATATATAATAAT
1 ATATATATTATACT
35196 AATATATATCTATATCT
1 -ATATATAT-TATA-CT
*
35213 ATATCTA-TATACT
1 ATATATATTATACT
35226 ATATATGATATATACT
1 ATATAT-AT-TATACT
35242 ATATATA
1 ATATATA
35249 AAAGTACGAA
Statistics
Matches: 87, Mismatches: 10, Indels: 20
0.74 0.09 0.17
Matches are distributed among these distances:
12 7 0.08
13 24 0.28
14 10 0.11
15 24 0.28
16 21 0.24
17 1 0.01
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.45
Consensus pattern (14 bp):
ATATATATTATACT
Found at i:35248 original size:27 final size:26
Alignment explanation
Indices: 35128--35248 Score: 99
Period size: 27 Copynumber: 4.6 Consensus size: 26
35118 ATAAAATTAA
35128 ATATATAT-TATATATAATAATAATATT
1 ATATATATATATATATAAT-AT-ATATT
*
35155 ATATATA-ATA-ATATTACATATATATA
1 ATATATATATATATA-TA-ATATATATT
35181 AT-TATATATA-ATAATAATATATATCT
1 ATATATATATATAT-ATAATATATAT-T
* * * *
35207 ATATCTATATCTATATACTATATATG
1 ATATATATATATATATAATATATATT
35233 ATATATACTATATATA
1 ATATATA-TATATATA
35249 AAAGTACGAA
Statistics
Matches: 77, Mismatches: 8, Indels: 18
0.75 0.08 0.17
Matches are distributed among these distances:
25 12 0.16
26 24 0.31
27 37 0.48
28 4 0.05
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.45
Consensus pattern (26 bp):
ATATATATATATATATAATATATATT
Found at i:40283 original size:45 final size:45
Alignment explanation
Indices: 40214--40331 Score: 200
Period size: 45 Copynumber: 2.6 Consensus size: 45
40204 GGATAGTTTG
* *
40214 AGCATTCGGCAATCATGGAGCCAAAGCTCTCTTTGATCTCTTTAA
1 AGCATTCGGCAATCATGGATCCAAAGCTCTCTTTGATCTCCTTAA
40259 AGCATTCGGCAATCATGGATCCAAAGCTCTCTTTGATCTCCTTAA
1 AGCATTCGGCAATCATGGATCCAAAGCTCTCTTTGATCTCCTTAA
* *
40304 AGCATTAGGCAATCATGGATCCTAAGCT
1 AGCATTCGGCAATCATGGATCCAAAGCT
40332 TTCCTTCATT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 69 1.00
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.30
Consensus pattern (45 bp):
AGCATTCGGCAATCATGGATCCAAAGCTCTCTTTGATCTCCTTAA
Found at i:40976 original size:68 final size:68
Alignment explanation
Indices: 40863--41264 Score: 572
Period size: 68 Copynumber: 6.0 Consensus size: 68
40853 ACCTTTGTGT
* * * * *
40863 TTCGTGTATGTTGTGTGTCTTCTTGTGTACCTTCATGTCTAGCCTCGCCTCACTGCGGAGGCTAT
1 TTCGTGTGTGTCGTGTGTCTTCTCGTGTACCTTCGTGTCTGGCCTCGCCTCACTGCGGAGGCTAT
40928 GTC
66 GTC
* * *
40931 TTCGTGTGTGTCGTGTGTCTTCTCGTGTACTTTCGTGTCTGGCCTCGCCTCATTGCGGAGGTTAT
1 TTCGTGTGTGTCGTGTGTCTTCTCGTGTACCTTCGTGTCTGGCCTCGCCTCACTGCGGAGGCTAT
*
40996 TTC
66 GTC
* *
40999 TTCGTGTGTGTCGTGTGTCTTCTCGTGTACCTTCGTGTTTGGCCTCGCCTCATTGCGGAGGCTAT
1 TTCGTGTGTGTCGTGTGTCTTCTCGTGTACCTTCGTGTCTGGCCTCGCCTCACTGCGGAGGCTAT
41064 GTC
66 GTC
41067 TT--TGTGTGTC-----TC--CTCGTGTACCTTCGTGTCTGGCCTCGCCTCACTGCGGAGGCTAT
1 TTCGTGTGTGTCGTGTGTCTTCTCGTGTACCTTCGTGTCTGGCCTCGCCTCACTGCGGAGGCTAT
41123 GTC
66 GTC
* * *
41126 TTTGTGTGTG-CTGTGTGTCTTCTCATGTACCTTCGTGTCTGGCCTCGCCTCACTGTGGAGGCTA
1 TTCGTGTGTGTC-GTGTGTCTTCTCGTGTACCTTCGTGTCTGGCCTCGCCTCACTGCGGAGGCTA
41190 TGTC
65 TGTC
* * *
41194 TTCGTGTGTGTCGTGTGTCTTCTCGTGTACTTTCGTGTCTGGCCTCGCCTCATTGCAGAGGCTAT
1 TTCGTGTGTGTCGTGTGTCTTCTCGTGTACCTTCGTGTCTGGCCTCGCCTCACTGCGGAGGCTAT
41259 GTC
66 GTC
41262 TTC
1 TTC
41265 TCGTGTATCT
Statistics
Matches: 300, Mismatches: 23, Indels: 22
0.87 0.07 0.06
Matches are distributed among these distances:
59 47 0.16
60 1 0.00
61 8 0.03
66 10 0.03
68 233 0.78
69 1 0.00
ACGTcount: A:0.07, C:0.26, G:0.27, T:0.40
Consensus pattern (68 bp):
TTCGTGTGTGTCGTGTGTCTTCTCGTGTACCTTCGTGTCTGGCCTCGCCTCACTGCGGAGGCTAT
GTC
Found at i:41205 original size:195 final size:192
Alignment explanation
Indices: 40873--41380 Score: 753
Period size: 195 Copynumber: 2.7 Consensus size: 192
40863 TTCGTGTATG
* * *
40873 TTGTGTGTCTTCTTGTGTACCTTCATGTCTAGCCTCGCCTCACTGCGGAGGCTATGTCTTCGTGT
1 TTGTGTGTC-TCTCGTGTACCTTCGTGTCTGGCCTCGCCTCACTGCGGAGGCTATGTCTTCGTGT
* * * *
40938 GTGTCGTGTGTCTTCTCGTGTACTTTCGTGTCTGGCCTCGCCTCATTGCGGAGGTTATTTCTTCG
65 GTGT-GTGTGTCTTCTCGTGTACCTTCGTGTCTGGCCTCGCCTCACTGCGGAGGCTATGTCTTCG
* *
41003 TGTGTGTCGTGTGTCTTCTCGTGTACCTTCGTGTTTGGCCTCGCCTCATTGCGGAGGCTATGTC
129 TGTGTGTCGTGTGTCTTCTCGTGTACCTTCGTGTCTGGCCTCGCCTCATTGCAGAGGCTATGTC
*
41067 TTTGTGTGTCTCCTCGTGTACCTTCGTGTCTGGCCTCGCCTCACTGCGGAGGCTATGTCTTTGTG
1 -TTGTGTGTCT-CTCGTGTACCTTCGTGTCTGGCCTCGCCTCACTGCGGAGGCTATGTCTTCGTG
* *
41132 TGTGCTGTGTGTCTTCTCATGTACCTTCGTGTCTGGCCTCGCCTCACTGTGGAGGCTATGTCTTC
64 TGTG-TGTGTGTCTTCTCGTGTACCTTCGTGTCTGGCCTCGCCTCACTGCGGAGGCTATGTCTTC
*
41197 GTGTGTGTCGTGTGTCTTCTCGTGTACTTTCGTGTCTGGCCTCGCCTCATTGCAGAGGCTATGTC
128 GTGTGTGTCGTGTGTCTTCTCGTGTACCTTCGTGTCTGGCCTCGCCTCATTGCAGAGGCTATGTC
* * *
41262 -------T-TCTCGTGTATCTTCGTGTCTGGCCTCGCCTCATTACGGAGGCTATGTCTTCGTGTG
1 TTGTGTGTCTCTCGTGTACCTTCGTGTCTGGCCTCGCCTCACTGCGGAGGCTATGTCTTCGTGTG
*
41319 TGTTGTGTGTCTTCTCGTGTACCTTCGTGTCTGGCCTCGCCCCACTGCGGAGGCTATGTCTT
66 TG-TGTGTGTCTTCTCGTGTACCTTCGTGTCTGGCCTCGCCTCACTGCGGAGGCTATGTCTT
41381 TTCATGTATT
Statistics
Matches: 290, Mismatches: 21, Indels: 14
0.89 0.06 0.04
Matches are distributed among these distances:
185 109 0.38
186 1 0.00
187 1 0.00
194 1 0.00
195 177 0.61
196 1 0.00
ACGTcount: A:0.07, C:0.26, G:0.27, T:0.39
Consensus pattern (192 bp):
TTGTGTGTCTCTCGTGTACCTTCGTGTCTGGCCTCGCCTCACTGCGGAGGCTATGTCTTCGTGTG
TGTGTGTGTCTTCTCGTGTACCTTCGTGTCTGGCCTCGCCTCACTGCGGAGGCTATGTCTTCGTG
TGTGTCGTGTGTCTTCTCGTGTACCTTCGTGTCTGGCCTCGCCTCATTGCAGAGGCTATGTC
Found at i:41281 original size:49 final size:49
Alignment explanation
Indices: 41209--41313 Score: 176
Period size: 49 Copynumber: 2.1 Consensus size: 49
41199 GTGTGTCGTG
*
41209 TGTCTTCTCGTGTACTTTCGTGTCTGGCCTCGCCTCATTGCAGAGGCTA
1 TGTCTTCTCGTGTACTTTCGTGTCTGGCCTCGCCTCATTACAGAGGCTA
*
41258 TGTCTTCTCGTGTA-TCTTCGTGTCTGGCCTCGCCTCATTACGGAGGCTA
1 TGTCTTCTCGTGTACT-TTCGTGTCTGGCCTCGCCTCATTACAGAGGCTA
41307 TGTCTTC
1 TGTCTTC
41314 GTGTGTGTTG
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
48 1 0.02
49 52 0.98
ACGTcount: A:0.10, C:0.29, G:0.24, T:0.38
Consensus pattern (49 bp):
TGTCTTCTCGTGTACTTTCGTGTCTGGCCTCGCCTCATTACAGAGGCTA
Found at i:41287 original size:117 final size:117
Alignment explanation
Indices: 41141--41430 Score: 472
Period size: 117 Copynumber: 2.5 Consensus size: 117
41131 GTGTGCTGTG
* *
41141 TGTCTTCTCATGTACCTTCGTGTCTGGCCTCGCCTCACTGTGGAGGCTATGTCTTCGTGTGTGTC
1 TGTCTTCTCATGTATCTTCGTGTCTGGCCTCGCCTCACTGCGGAGGCTATGTCTTCGTGTGTGTC
* * *
41206 GTGTGTCTTCTCGTGTACTTTCGTGTCTGGCCTCGCCTCATTGCAGAGGCTA
66 GTGTGTCTTCTCGTGTACCTTCGTGTCTGGCCTCGCCCCACTGCAGAGGCTA
* * * *
41258 TGTCTTCTCGTGTATCTTCGTGTCTGGCCTCGCCTCATTACGGAGGCTATGTCTTCGTGTGTGTT
1 TGTCTTCTCATGTATCTTCGTGTCTGGCCTCGCCTCACTGCGGAGGCTATGTCTTCGTGTGTGTC
*
41323 GTGTGTCTTCTCGTGTACCTTCGTGTCTGGCCTCGCCCCACTGCGGAGGCTA
66 GTGTGTCTTCTCGTGTACCTTCGTGTCTGGCCTCGCCCCACTGCAGAGGCTA
* *
41375 TGTCTTTTCATGTATTTTCGTGTCTGGCCTCGCCTCACTGCGGAGGCTATGTCTTC
1 TGTCTTCTCATGTATCTTCGTGTCTGGCCTCGCCTCACTGCGGAGGCTATGTCTTC
41431 TCGTGTAGCT
Statistics
Matches: 158, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
117 158 1.00
ACGTcount: A:0.08, C:0.28, G:0.26, T:0.38
Consensus pattern (117 bp):
TGTCTTCTCATGTATCTTCGTGTCTGGCCTCGCCTCACTGCGGAGGCTATGTCTTCGTGTGTGTC
GTGTGTCTTCTCGTGTACCTTCGTGTCTGGCCTCGCCCCACTGCAGAGGCTA
Found at i:41398 original size:49 final size:49
Alignment explanation
Indices: 41326--41448 Score: 183
Period size: 49 Copynumber: 2.5 Consensus size: 49
41316 GTGTGTTGTG
* *
41326 TGTCTTCTCGTGTACCTTCGTGTCTGGCCTCGCCCCACTGCGGAGGCTA
1 TGTCTTCTCATGTAGCTTCGTGTCTGGCCTCGCCCCACTGCGGAGGCTA
* ** *
41375 TGTCTTTTCATGTATTTTCGTGTCTGGCCTCGCCTCACTGCGGAGGCTA
1 TGTCTTCTCATGTAGCTTCGTGTCTGGCCTCGCCCCACTGCGGAGGCTA
*
41424 TGTCTTCTCGTGTAGCTTCGTGTCT
1 TGTCTTCTCATGTAGCTTCGTGTCT
41449 TCGCGTGTTG
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
49 65 1.00
ACGTcount: A:0.08, C:0.29, G:0.25, T:0.37
Consensus pattern (49 bp):
TGTCTTCTCATGTAGCTTCGTGTCTGGCCTCGCCCCACTGCGGAGGCTA
Found at i:43112 original size:333 final size:331
Alignment explanation
Indices: 42179--46527 Score: 5779
Period size: 333 Copynumber: 13.2 Consensus size: 331
42169 TCGTGATGGT
* * * * *
42179 TTTGTCAAAAATTGATCCGAAAGATTTTTCCTCAATTTTTAACCGCAGTACTCGGAAAAAAAAAA
1 TTTG-CAAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAACCGCAATACTC-GTAAAAAATAT
* * *
42244 ATAATTGAACGCCAAAAAGATTGAAGGGCTTTTCACGCTTTTAATATCATATTTTCAATTTTTCT
64 ATAATTCAACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCATATTTTCAATTTTTCC
* * * *
42309 CAAATTAATTTCTATTTAAATCGAAACAAGATTCAGATTATTG-AAAACACAAATCCTTAAATCT
129 CGAATTAATTTCTATTTAAATCGAAACAAGATTCAGATGATCGTAAAA-ACAAATCCTTAAATCC
* *
42373 ATTATGGCTGAGAT-TTGGGATGATTGATATAGATATTTCAATGAGTCTTGGCGCCAAAAATCAT
193 ATTGTGGCT-A-ATATTGGGATGATTAATATAGATATTTCAATGAGTCTTGGCGCCAAAAATCAT
*
42437 GCAAAACTGAGTTGGGGCACCGGAA-GACGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGAT
256 GCAAAACTGAGTCGGGGCACCGGAACG-CGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGAT
42501 TTCGGC-AAAAA
320 TTCGGCAAAAAA
* * * *
42512 TCTTGCAAAAATTGACCCGAATGATTTTTCCTCAATTTTTAACCGCAGTACTTGTAAAAAATTTA
1 T-TTGCAAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAACCGCAATACTCGTAAAAAATATA
* * *
42577 TAATTCAATGCCAAAAAAATTGAAGGGCTTTTCACGCTTCTAATATAAT-TTTTCAATTTCTTCC
65 TAATTCAACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCATATTTTCAATTT-TTCC
* * *
42641 CGAA-TAATTTTTTTTTCCAATCGAAACAAGATTCAGATGATCGTAAAAACAAATCCTTAAATCC
129 CGAATTAATTTCTATTT-AAATCGAAACAAGATTCAGATGATCGTAAAAACAAATCCTTAAATCC
* * * * **
42705 ATTGTGGCTAATATTTGGTTAGATTAATATAGATATTTCAATGCGTCTTGACTTCAAAAATCATG
193 ATTGTGGCTAATATTGGGAT-GATTAATATAGATATTTCAATGAGTCTTGGCGCCAAAAATCATG
* * * *
42770 CAAAACTGAGTCGGGGTACCGGAACGCGTCTTTAGCCAAAAACTGTGATGGATAGTACACGATTT
257 CAAAACTGAGTCGGGGCACCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTT
42835 CGGCAAAAAA
322 CGGCAAAAAA
* * * * *
42845 TTAGCAAAAATTAACCCTAAAGATTTTTCCTCAATTTTTAACCGTAGTACTCGTAAAAAATATAT
1 TTTGCAAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAACCGCAATACTCGTAAAAAATATAT
* * * *
42910 ATTTCAACGCCAAAAAGATTAAAGGGC-TTTCGACGCTTCCAATATCATTTTTTCAATTCTTTCC
66 AATTCAACGCCAAAAAGATTGAAGGGCTTTTC-ACGCTTCTAATATCATATTTTCAATT-TTTCC
* * *
42974 CGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGATCGTTAAAACAAATCCTTAAATACA
129 CGAATTAATTTCTATTTAAATCGAAACAAGATTCAGATGATCGTAAAAACAAATCCTTAAATCCA
* * *
43039 TTGTGGCTGAGAGTTGGGATGATTAATATAGATATTTCAATAAGTCTTGGCGCCAAAAATCATGC
194 TTGTGGCTAATA-TTGGGATGATTAATATAGATATTTCAATGAGTCTTGGCGCCAAAAATCATGC
*
43104 AAAACTGAGTCGGGTCACCGGAACGCGTTTTTAGCCAAAAA-C-----------T-----A---C
258 AAAACTGAGTCGGGGCACCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTC
*
43149 GGCAAAAAC
323 GGCAAAAAA
* * * *
43158 TTTGCAAAAATTGACCCGAAAGATTTTTCCTTAATTTTGAACCGCAATACTTGTAAAAGATATAT
1 TTTGCAAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAACCGCAATACTCGTAAAAAATATAT
* * * *
43223 AATTCAATGGCAGAAAGATTGAAGGGCTTTTTCACGCTTCTAATATAATATTTTCAATTTCTTCC
66 AATTCAACGCCAAAAAGATTGAAGGGC-TTTTCACGCTTCTAATATCATATTTTCAATTT-TTCC
* * *
43288 CGAATAAATTTCTATTTCAATCGAAACAAGATTCAGATGATCG-AAAAAAAAATCCTTAAATCCA
129 CGAATTAATTTCTATTTAAATCGAAACAAGATTCAGATGATCGTAAAAACAAATCCTTAAATCCA
* * * * *
43352 TTGTGGCTAATATTTGGTTAGATTAATATAGATATTTCAATGAGTCTTGACTCCAAAAATCATAC
194 TTGTGGCTAATATTGGGAT-GATTAATATAGATATTTCAATGAGTCTTGGCGCCAAAAATCATGC
* * * * *
43417 AAAACTGAGCCGGGGCACTGAAACGCGTCTTTAGCCAAAAACC-TGATGGTTAATACACGATTTC
258 AAAACTGAGTCGGGGCACCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTC
*
43481 GGTAAAAAA
323 GGCAAAAAA
*
43490 TTTGCAAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAACCGCAGTACTCGTAAAAAATATAT
1 TTTGCAAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAACCGCAATACTCGTAAAAAATATAT
* * * *
43555 AATTCAACGCCAAAAATATTGAAGGTCTTTTCACGCTTCTAATATCATTTTTTTCAATTTTTCCA
66 AATTCAACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCA-TATTTTCAATTTTTCCC
* * *
43620 AAATTAATTTCTACTTAAATCGAAACAAGATTCAGATGATCGTAAAAACAAATCCTTAAATCTAT
130 GAATTAATTTCTATTTAAATCGAAACAAGATTCAGATGATCGTAAAAACAAATCCTTAAATCCAT
* * *
43685 TGTGGCTGAGAT-TTGGGATTATTAATATAGATATTTCAATGAGTCTTTGCGTCAAAAATCATGC
195 TGTGGCT-A-ATATTGGGATGATTAATATAGATATTTCAATGAGTCTTGGCGCCAAAAATCATGC
** * * * *
43749 AAAACTGAGTTAGGGC-CCGGTACGCATTTTTAGCCAAAAACCGTGAAGGTTAGTACACAATTTC
258 AAAACTGAGTCGGGGCACCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTC
**
43813 GGCAAAACT
323 GGCAAAAAA
* * * * * *
43822 TTTGCAAAAATTGACCCGAAAGATTTTTTCTTAATTTTGAACCGAAATACTTGTAAAAGATATAT
1 TTTGCAAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAACCGCAATACTCGTAAAAAATATAT
* *
43887 AATTCAACGGCATAAAGATTGAAGGGCTTTTCACGCTTCTAATATCATATTTTCAATTTCTTCCC
66 AATTCAACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCATATTTTCAATTT-TTCCC
* * * * * *
43952 TAATAAATTTGTATTTCAATCGAAACAAGATTCAGTTGATCGTAAAAAAGAAATCCTTAAATCCA
130 GAATTAATTTCTATTTAAATCGAAACAAGATTCAGATGATCGT-AAAAACAAATCCTTAAATCCA
* * * * *
44017 TTGTGTCTAATATTTGGTTAGATTAATATAGATATTTCAATGAGTATTGGCTCCAAAAATCATGC
194 TTGTGGCTAATATTGGGAT-GATTAATATAGATATTTCAATGAGTCTTGGCGCCAAAAATCATGC
* * *
44082 AAAATTGAGCCGGGGCACCGGAACGCGTCTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTC
258 AAAACTGAGTCGGGGCACCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTC
44147 GGCAAAAAA
323 GGCAAAAAA
* *
44156 TTTGCAAAAATTGACCCGAAAGATTTTTCCTCAATTATAAACCGCAATACTCGTAAAAAATATAT
1 TTTGCAAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAACCGCAATACTCGTAAAAAATATAT
* * * *
44221 AATTCAACTCCAAAAAGATTGATGGGTCTTTTCACGCTTCTAATATCTTTTTTTCAATTCTTTCC
66 AATTCAACGCCAAAAAGATTGAAGGG-CTTTTCACGCTTCTAATATCATATTTTCAATT-TTTCC
* * * *
44286 CGAATTAATTTTTAATTAAATCGAAACAAGATTCAAATGATCGTAAAAATAAATCCTTAAATCCA
129 CGAATTAATTTCTATTTAAATCGAAACAAGATTCAGATGATCGTAAAAACAAATCCTTAAATCCA
* * * * *
44351 TTGTGGCTAATATTTGGTTAGATTAATATAGATATTTCAATGCGTCTTGACTCCAAAAATCATGC
194 TTGTGGCTAATATTGGGAT-GATTAATATAGATATTTCAATGAGTCTTGGCGCCAAAAATCATGC
* * * * *
44416 AAAACTGAGCCGGGGTACCGGAACGCGTCTTTAGCCAAAAACCATGATGGATAGTACACGATTTC
258 AAAACTGAGTCGGGGCACCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTC
44481 GGCAAAAAA
323 GGCAAAAAA
*
44490 TTTGCAAAAATTGACCCGAAAGATTTTTCCTCAATTATTAACCGCAATACTCGTAAAAAATATAT
1 TTTGCAAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAACCGCAATACTCGTAAAAAATATAT
* * *
44555 AATTCAACGCCAAAAAGATTGATGGGCTTTTCACGCTTCTAATATCTTTTTTTCAATTCTTTCCC
66 AATTCAACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCATATTTTCAATT-TTTCCC
* * *
44620 GAATTAATTTTTAATTAAATCGAAACAAGATTCAGATGATCGTAAAAACAAATCCTTAAATACAT
130 GAATTAATTTCTATTTAAATCGAAACAAGATTCAGATGATCGTAAAAACAAATCCTTAAATCCAT
*
44685 TGTGGCTGAA-AGTTGGGATGATTAATATAGATATTTCAATGAGTCTTTGCGCCAAAAATCATGC
195 TGTGGCT-AATA-TTGGGATGATTAATATAGATATTTCAATGAGTCTTGGCGCCAAAAATCATGC
* *
44749 ATAACTGAGTCGGGGCACCGGAACGCGTTTTTAACC---AA-----A-----A--AC-CG----C
258 AAAACTGAGTCGGGGCACCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTC
*
44794 GGCAAAAAC
323 GGCAAAAAA
* * * *
44803 TTTGCAAAAATTGACCCGAAAGATTTTTCCTTAATTTTGAACCGCAATACTTGTAAAAGATATAT
1 TTTGCAAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAACCGCAATACTCGTAAAAAATATAT
* *
44868 AATTCAACGGCAGAAAGATTGAAGGGCTTTTCACGCTTCTAATATCATATTTTCAATTTCTTCCC
66 AATTCAACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCATATTTTCAATTT-TTCCC
* * *
44933 GAATAAATTTCTATTTGAATCGAAACAAGATTCGGATGATCGTAAAAACAAATCCTTAAATCCAT
130 GAATTAATTTCTATTTAAATCGAAACAAGATTCAGATGATCGTAAAAACAAATCCTTAAATCCAT
* * * * *
44998 TGTGGCTAATATTTGGTTAGATTAATATAGATATTTCCATGAGTCTTGACTCCAAAAATCATGCA
195 TGTGGCTAATATTGGGAT-GATTAATATAGATATTTCAATGAGTCTTGGCGCCAAAAATCATGCA
** * * * * *
45063 AAACTTCGCCGGGGCACCGGAACGCGTCTTTAG-CAAAATACTGTGATGGTTAGTACACAAGTTC
259 AAACTGAGTCGGGGCACCGGAACGCGTTTTTAGCCAAAA-ACCGTGATGGTTAGTACACGATTTC
*
45127 GGCAAAAAC
323 GGCAAAAAA
45136 TTTGCAAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAACCGCAATACTCGTAAAAAATATAT
1 TTTGCAAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAACCGCAATACTCGTAAAAAATATAT
* * *
45201 AATTCAACGCCAAAAAAATTGAAGGGCTTTTTACGCTTCTAATATCATATTTTCAATTTTTCCCA
66 AATTCAACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCATATTTTCAATTTTTCCCG
* * * * *
45266 AATTAATTTCTATCTAAATCGAAACAAGATTCAGATGATTGTAAAGACAAATCATTAAATCTATT
131 AATTAATTTCTATTTAAATCGAAACAAGATTCAGATGATCGTAAAAACAAATCCTTAAATCCATT
*
45331 GTGGCTGAGCT-TTGGGATGATTAATATAGATATTTCAATGAGTCTTGGCGCCAAAAATCATGCA
196 GTGGCT-A-ATATTGGGATGATTAATATAGATATTTCAATGAGTCTTGGCGCCAAAAATCATGCA
* *
45395 AAACTGAGTTGGGGCACCGAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCG
259 AAACTGAGTCGGGGCACCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCG
45460 GCAAAAAA
324 GCAAAAAA
* * *
45468 CTTTGCAAAAATTGACCCGAAAGATTTTTCCTCAATTTTGAACCGCAATACTTGTAAAAGATATA
1 -TTTGCAAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAACCGCAATACTCGTAAAAAATATA
* * * *
45533 TAATTCAATGGCAGAAAGATTGAAGGGCTTTTCACGCTTCTAATATAATATTTTCAATTTCTTCC
65 TAATTCAACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCATATTTTCAATTT-TTCC
* * * *
45598 CGAATAAATTTCTATTTAAATCGAAACAAGATTCAAATGATAGTAAAAACAAATCCTGAAATCCA
129 CGAATTAATTTCTATTTAAATCGAAACAAGATTCAGATGATCGTAAAAACAAATCCTTAAATCCA
* * * * * * * *
45663 TTGTGTCTAATATTTGGTTAGATTAATATTGATATTTCAATGAGTTTTGACTCAAAAAATCATGC
194 TTGTGGCTAATATTGGGAT-GATTAATATAGATATTTCAATGAGTCTTGGCGCCAAAAATCATGC
* * * *
45728 AAAACTGAGCCGGGGCATCGGAACGCGTCTTTAGCCAAAAACTGTGATGGTTAGTACACGATTTC
258 AAAACTGAGTCGGGGCACCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTC
* *
45793 TGCAAAAAG
323 GGCAAAAAA
45802 TTTGCAAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAACCGCAATACTCGTAAAAAATATAT
1 TTTGCAAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAACCGCAATACTCGTAAAAAATATAT
* * *
45867 AATTCAACGCCAAAAAGATTGATGGGCTTTTCGCGCTTCTAATATCATTTTTTCAATTCTTTCCC
66 AATTCAACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCATATTTTCAATT-TTTCCC
*
45932 GAATTAATTTCTATTTAAATCGAAACAAGATTCAGATGATCATAAAAACAAATCCTTAAATCCAT
130 GAATTAATTTCTATTTAAATCGAAACAAGATTCAGATGATCGTAAAAACAAATCCTTAAATCCAT
*
45997 TGTGGCTGAA-ATTTGGGATGATTTATATAGATATTTCAATGAGTCTTGGCGCCAAAAATCATGC
195 TGTGGCT-AATA-TTGGGATGATTAATATAGATATTTCAATGAGTCTTGGCGCCAAAAATCATGC
* * * *
46061 AAAACTGAGTTGAGGCACTGGAACGCATTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTC
258 AAAACTGAGTCGGGGCACCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTC
*
46126 GGCAAAAAT
323 GGCAAAAAA
* *
46135 TTTGCAAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAACCGTAGTACTCGTAAAAAATATAT
1 TTTGCAAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAACCGCAATACTCGTAAAAAATATAT
* **
46200 AATTCAACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCATATTTTCAATTTTTTCAA
66 AATTCAACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCATATTTTCAATTTTTCCCG
* * * *
46265 AATTAATTTCTATTTAAATCGAAACAAGATTCATATGATTGTAAACACAAATCCTTAAATCTATT
131 AATTAATTTCTATTTAAATCGAAACAAGATTCAGATGATCGTAAAAACAAATCCTTAAATCCATT
* * *
46330 GTGACTTAGAT-TTGGGATGATTAATATAGATATTTCAATGAGTCTTAGCACCAAAAATCATGCA
196 GTGGC-TA-ATATTGGGATGATTAATATAGATATTTCAATGAGTCTTGGCGCCAAAAATCATGCA
* * **
46394 AAACTGAGTTGGGGCACCGGAACGCGTTTTTAGCTAAAAACCGTGATGGTTAGTACAAAATTTCG
259 AAACTGAGTCGGGGCACCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCG
*
46459 GCAAAAAC
324 GCAAAAAA
* ** * * * *
46467 TTAGTTAAAATTGACTC-AAATGATTTTTCCTCAATTTTCAACAGCAATACTTGTAAAAAAT
1 TTTGCAAAAATTGACCCGAAA-GATTTTTCCTCAATTTTTAACCGCAATACTCGTAAAAAAT
46528 TAAGTGCATG
Statistics
Matches: 3533, Mismatches: 395, Indels: 177
0.86 0.10 0.04
Matches are distributed among these distances:
312 14 0.00
313 456 0.13
314 68 0.02
315 5 0.00
316 2 0.00
317 2 0.00
318 2 0.00
320 1 0.00
321 2 0.00
324 1 0.00
325 1 0.00
326 1 0.00
328 2 0.00
329 2 0.00
330 4 0.00
331 128 0.04
332 1053 0.30
333 1138 0.32
334 579 0.16
335 71 0.02
336 1 0.00
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (331 bp):
TTTGCAAAAATTGACCCGAAAGATTTTTCCTCAATTTTTAACCGCAATACTCGTAAAAAATATAT
AATTCAACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCATATTTTCAATTTTTCCCG
AATTAATTTCTATTTAAATCGAAACAAGATTCAGATGATCGTAAAAACAAATCCTTAAATCCATT
GTGGCTAATATTGGGATGATTAATATAGATATTTCAATGAGTCTTGGCGCCAAAAATCATGCAAA
ACTGAGTCGGGGCACCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGC
AAAAAA
Done.