Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008502.1 Hibiscus syriacus cultivar Beakdansim tig00111354_pilon, 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: 71499
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Found at i:925 original size:24 final size:24
Alignment explanation
Indices: 898--978 Score: 75
Period size: 24 Copynumber: 3.5 Consensus size: 24
888 ACACTTAACA
898 GTGCATCGATGCATCCCTTTGAAT
1 GTGCATCGATGCATCCCTTTGAAT
* *
922 GTGCATCGATTCAT-CATGTTG-AT
1 GTGCATCGATGCATCCCT-TTGAAT
*
945 -T-CACCGATGCA-CGCC-TTGAAT
1 GTGCATCGATGCATC-CCTTTGAAT
966 GTGCATCGATGCA
1 GTGCATCGATGCA
979 CAGGGTCATG
Statistics
Matches: 45, Mismatches: 6, Indels: 13
0.70 0.09 0.20
Matches are distributed among these distances:
20 3 0.07
21 10 0.22
22 3 0.07
23 13 0.29
24 16 0.36
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.31
Consensus pattern (24 bp):
GTGCATCGATGCATCCCTTTGAAT
Found at i:3091 original size:24 final size:22
Alignment explanation
Indices: 3051--3127 Score: 74
Period size: 24 Copynumber: 3.6 Consensus size: 22
3041 ATGCAATTAA
3051 TGCATCGATGCA---TAAGGAG
1 TGCATCGATGCACTGTAAGGAG
*
3070 TGCATCGATGCACATGTTAAGGGG
1 TGCATCGATGCAC-TG-TAAGGAG
* *
3094 TGCATCGATACACTGTAA--AA
1 TGCATCGATGCACTGTAAGGAG
3114 TGCATCGATGCACT
1 TGCATCGATGCACT
3128 TCAAGGGAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
19 12 0.25
20 13 0.27
22 3 0.06
23 2 0.04
24 18 0.38
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (22 bp):
TGCATCGATGCACTGTAAGGAG
Found at i:5824 original size:21 final size:21
Alignment explanation
Indices: 5782--5824 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
5772 AATCCGGGAG
* *
5782 CTAGTTCCTCACGAGCTGCTC
1 CTAGCTCCTCACGAGCTCCTC
* *
5803 CTAGCTCCTCTCGTGCTCCTC
1 CTAGCTCCTCACGAGCTCCTC
5824 C
1 C
5825 CCCTCCTCCG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.09, C:0.44, G:0.16, T:0.30
Consensus pattern (21 bp):
CTAGCTCCTCACGAGCTCCTC
Found at i:7017 original size:45 final size:46
Alignment explanation
Indices: 6968--7055 Score: 142
Period size: 45 Copynumber: 1.9 Consensus size: 46
6958 GAACATCGAA
* * *
6968 TGCATTTTATGCATCGATGCAC-ATACCATGCATCGATGCACTTAG
1 TGCATTTGATGCATCGATGCACAAGACCATGCATCAATGCACTTAG
7013 TGCATTTGATGCATCGATGCACAAGACCATGCATCAATGCACT
1 TGCATTTGATGCATCGATGCACAAGACCATGCATCAATGCACT
7056 CAGGCTATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
45 21 0.54
46 18 0.46
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.28
Consensus pattern (46 bp):
TGCATTTGATGCATCGATGCACAAGACCATGCATCAATGCACTTAG
Found at i:8562 original size:21 final size:22
Alignment explanation
Indices: 8509--8564 Score: 96
Period size: 22 Copynumber: 2.6 Consensus size: 22
8499 ACATCTACAT
8509 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
8531 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
*
8553 T-TTTAAAGATGA
1 TCTTCAAAGATGA
8565 AAGCTTTATT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 10 0.30
22 23 0.70
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (22 bp):
TCTTCAAAGATGATAGATTCTC
Found at i:9074 original size:113 final size:111
Alignment explanation
Indices: 8874--9444 Score: 632
Period size: 113 Copynumber: 4.9 Consensus size: 111
8864 GATTCAAATC
* *
8874 CATCACTCAATGGATTAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
1 CATCACTCGATGGATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
*
8939 TAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGAATT
66 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCG-ATT
* *
8986 CATCACTCGATGGATCAACATTGCCATGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCACTCGATGGATCAACATTTCCA-GAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* * *
9051 AGAAGAATTTCATAATGATAAGAATTTGTTCAACCTTTTGCTCGAATT
65 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCG-ATT
* *
9099 CATCACTCGATGGATCAATATTTCCAGAAGTGTTCATAATGAGAAGAACTCATCTGAAG-AGGAA
1 CATCACTCGATGGATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
9163 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGATT
66 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGATT
* *
9209 CTATC-C-CAGAAGGAGATAAATCAACACCAACATTTCCAGAAGGAGTTCATAATGAAAAGAAC-
1 C-ATCACTC-G-ATG-G----AT------CAACATTTCCAGAA-GAGTTCATAATGAGAAGAACT
* * *
9271 CTATCTGAAGAATGAAGAAGAAGTTCATAATGATAAGAACTTGTTCAACCTTTTGCTTGATT
51 C-ATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGATT
* *
9333 CTATCA-TAGAAGGAAATAGATCAGCATCAACATTTCCAGAAGAGTTTATAATGAGAAGAACTCA
1 C-ATCACT----CG--AT-G----G-ATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCA
* * *
9397 TCTAAAGAAGG-AGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTT
53 TCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTT
9445 GCCTTAATTC
Statistics
Matches: 397, Mismatches: 32, Indels: 50
0.83 0.07 0.10
Matches are distributed among these distances:
109 1 0.00
110 6 0.02
111 50 0.13
112 55 0.14
113 105 0.26
116 2 0.01
122 48 0.12
123 54 0.14
124 68 0.17
128 1 0.00
129 2 0.01
130 3 0.01
133 2 0.01
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.27
Consensus pattern (111 bp):
CATCACTCGATGGATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGATT
Found at i:9309 original size:235 final size:224
Alignment explanation
Indices: 8874--9444 Score: 654
Period size: 235 Copynumber: 2.5 Consensus size: 224
8864 GATTCAAATC
* *
8874 CATCACTCAATGGATTAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
1 CATCACTCGATGGATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
* *
8939 TAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGAATTCATCACTCGATGGATCAA
66 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGAATTCATCACTCGAGGGATCAA
* * *
9004 CATTGCCATGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAATTTCATAATGA
131 CATTGCCATGAAGAGTTCATAATGAAAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
*
9069 TAAGAATTTGTTCAACCTTTTGCTCGAATT
196 TAAGAACTTGTTCAACCTTTTGCTCG-ATT
* *
9099 CATCACTCGATGGATCAATATTTCCAGAAGTGTTCATAATGAGAAGAACTCATCTGAAG-AGGAA
1 CATCACTCGATGGATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
9163 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCG-ATTCTATC-C-CAGAAGGAGA
66 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGAATTC-ATCACTC-G-AGG-G-
* *
9225 TAAATCAACACCAACATTTCCA-GAAGGAGTTCATAATGAAAAGAAC-CTATCTGAAGAATGAAG
126 ---AT------CAACATTGCCATGAA-GAGTTCATAATGAAAAGAACTC-ATCTGAAGAAGGAAG
*
9288 AAGAAGTTCATAATGATAAGAACTTGTTCAACCTTTTGCTTGATT
180 AAGAAGTTCATAATGATAAGAACTTGTTCAACCTTTTGCTCGATT
* *
9333 CTATCA-TAGAAGGAAATAGATCAGCATCAACATTTCCAGAAGAGTTTATAATGAGAAGAACTCA
1 C-ATCACT----CG--AT-G----G-ATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCA
* * *
9397 TCTAAAGAAGG-AGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTT
53 TCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTT
9445 GCCTTAATTC
Statistics
Matches: 296, Mismatches: 20, Indels: 39
0.83 0.06 0.11
Matches are distributed among these distances:
222 1 0.00
223 6 0.02
224 52 0.18
225 56 0.19
229 2 0.01
234 8 0.03
235 86 0.29
238 1 0.00
240 2 0.01
241 1 0.00
245 1 0.00
246 77 0.26
247 3 0.01
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.27
Consensus pattern (224 bp):
CATCACTCGATGGATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGAATTCATCACTCGAGGGATCAA
CATTGCCATGAAGAGTTCATAATGAAAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
TAAGAACTTGTTCAACCTTTTGCTCGATT
Found at i:9364 original size:124 final size:122
Alignment explanation
Indices: 9112--9613 Score: 510
Period size: 124 Copynumber: 4.0 Consensus size: 122
9102 CACTCGATGG
* * *
9112 ATCAATATTTCCAGAAGTGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAA
1 ATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAA
* *
9177 TGAGAAGAACTTGTTCAACCTTTTGCTCGATTCTATCCCAGAAGGAGATAAATCAAC
66 TGAGAAGAACTTGTTCAACCTTTTGCTCGATTCTATCACAGAAGGAAATAAATCAAC
* *
9234 ACCAACATTTCCAGAAGGAGTTCATAATGAAAAGAAC-CTATCTGAAGAATGAAGAAGAAGTTCA
1 ATCAACATTTCCAGAA-GAGTTCATAATGAGAAGAACTC-ATCTGAAGAA-GAAGAAGAAGTTCA
* * * * *
9298 TAATGATAAGAACTTGTTCAACCTTTTGCTTGATTCTATCATAGAAGGAAATAGATCAGC
63 TAATGAGAAGAACTTGTTCAACCTTTTGCTCGATTCTATCACAGAAGGAAATAAATCAAC
* * * *
9358 ATCAACATTTCCAGAAGAGTTTATAATGAGAAGAACTCATCTAAAGAAGGAGAAGAAATTCATAA
1 ATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAA
* ** *
9423 TGAGAAGAATTTGTTCAACC--TTGCCTTAATTC-ATCACATATGAAGCCAAATTAACAACCCCT
66 TGAGAAGAACTTGTTCAACCTTTTG-CTCGATTCTATCAC--A-GAAG-GAAA-T-A-AA----T
*
9485 CTTTTTAAAG
119 C------AAC
* *
9495 ATCAACATTTCCAGAAGGAGTTCATAATGAGAAGAACTCATCTGAAAAAGAAGAATAAGTTCATA
1 ATCAACATTTCCAGAA-GAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATA
* * * * *
9560 ATGAGAAGAATTTGTTCAACTTTTTGCTAGATTATATCACA-AAAGAATATAAAT
65 ATGAGAAGAACTTGTTCAACCTTTTGCTCGATTCTATCACAGAAGGAA-ATAAAT
9614 TGTCATCCCC
Statistics
Matches: 315, Mismatches: 38, Indels: 47
0.79 0.09 0.12
Matches are distributed among these distances:
120 7 0.02
121 7 0.02
122 49 0.16
123 58 0.18
124 86 0.27
125 1 0.00
126 1 0.00
127 1 0.00
129 1 0.00
131 2 0.01
133 2 0.01
134 1 0.00
135 3 0.01
136 3 0.01
137 17 0.05
138 63 0.20
139 5 0.02
140 8 0.03
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.27
Consensus pattern (122 bp):
ATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAA
TGAGAAGAACTTGTTCAACCTTTTGCTCGATTCTATCACAGAAGGAAATAAATCAAC
Found at i:9972 original size:294 final size:294
Alignment explanation
Indices: 9443--10038 Score: 1192
Period size: 294 Copynumber: 2.0 Consensus size: 294
9433 TTGTTCAACC
9443 TTGCCTTAATTCATCACATATGAAGCCAAATTAACAACCCCTCTTTTTAAAGATCAACATTTCCA
1 TTGCCTTAATTCATCACATATGAAGCCAAATTAACAACCCCTCTTTTTAAAGATCAACATTTCCA
9508 GAAGGAGTTCATAATGAGAAGAACTCATCTGAAAAAGAAGAATAAGTTCATAATGAGAAGAATTT
66 GAAGGAGTTCATAATGAGAAGAACTCATCTGAAAAAGAAGAATAAGTTCATAATGAGAAGAATTT
9573 GTTCAACTTTTTGCTAGATTATATCACAAAAGAATATAAATTGTCATCCCCAGTAGAAAAGTTCA
131 GTTCAACTTTTTGCTAGATTATATCACAAAAGAATATAAATTGTCATCCCCAGTAGAAAAGTTCA
9638 TAATGAGAAGAACTAATCCCAAAAAGAAGAATTTGTTCAGCATTGCCATCATAATCAAGTGAAGT
196 TAATGAGAAGAACTAATCCCAAAAAGAAGAATTTGTTCAGCATTGCCATCATAATCAAGTGAAGT
9703 CAAATGGATAAAAAAATTTATTATCTTTTCGTCT
261 CAAATGGATAAAAAAATTTATTATCTTTTCGTCT
9737 TTGCCTTAATTCATCACATATGAAGCCAAATTAACAACCCCTCTTTTTAAAGATCAACATTTCCA
1 TTGCCTTAATTCATCACATATGAAGCCAAATTAACAACCCCTCTTTTTAAAGATCAACATTTCCA
9802 GAAGGAGTTCATAATGAGAAGAACTCATCTGAAAAAGAAGAATAAGTTCATAATGAGAAGAATTT
66 GAAGGAGTTCATAATGAGAAGAACTCATCTGAAAAAGAAGAATAAGTTCATAATGAGAAGAATTT
9867 GTTCAACTTTTTGCTAGATTATATCACAAAAGAATATAAATTGTCATCCCCAGTAGAAAAGTTCA
131 GTTCAACTTTTTGCTAGATTATATCACAAAAGAATATAAATTGTCATCCCCAGTAGAAAAGTTCA
9932 TAATGAGAAGAACTAATCCCAAAAAGAAGAATTTGTTCAGCATTGCCATCATAATCAAGTGAAGT
196 TAATGAGAAGAACTAATCCCAAAAAGAAGAATTTGTTCAGCATTGCCATCATAATCAAGTGAAGT
9997 CAAATGGATAAAAAAATTTATTATCTTTTCGTCT
261 CAAATGGATAAAAAAATTTATTATCTTTTCGTCT
10031 TTGCCTTA
1 TTGCCTTA
10039 TTCTTGTTAA
Statistics
Matches: 302, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
294 302 1.00
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (294 bp):
TTGCCTTAATTCATCACATATGAAGCCAAATTAACAACCCCTCTTTTTAAAGATCAACATTTCCA
GAAGGAGTTCATAATGAGAAGAACTCATCTGAAAAAGAAGAATAAGTTCATAATGAGAAGAATTT
GTTCAACTTTTTGCTAGATTATATCACAAAAGAATATAAATTGTCATCCCCAGTAGAAAAGTTCA
TAATGAGAAGAACTAATCCCAAAAAGAAGAATTTGTTCAGCATTGCCATCATAATCAAGTGAAGT
CAAATGGATAAAAAAATTTATTATCTTTTCGTCT
Found at i:10114 original size:14 final size:13
Alignment explanation
Indices: 10087--10200 Score: 50
Period size: 14 Copynumber: 8.0 Consensus size: 13
10077 AATATATTAA
10087 TTTTTTTATCTATT
1 TTTTTTTAT-TATT
10101 TGTTTTTTATTATT
1 T-TTTTTTATTATT
*
10115 TTTATTATATTA-T
1 TTT-TTTTATTATT
* ** *
10128 TATTAGTATCATT
1 TTTTTTTATTATT
10141 TTATTTATACTATTATT
1 TT-TTT-T--TATTATT
*
10158 ATTATTTTATTATT
1 -TTTTTTTATTATT
*
10172 TATTTATTATTATT
1 T-TTTTTTATTATT
*
10186 ATTATTATTATTATT
1 -TT-TTTTTATTATT
10201 ATTATTATTA
Statistics
Matches: 77, Mismatches: 12, Indels: 21
0.70 0.11 0.19
Matches are distributed among these distances:
12 5 0.06
13 8 0.10
14 33 0.43
15 20 0.26
16 1 0.01
17 8 0.10
18 2 0.03
ACGTcount: A:0.26, C:0.03, G:0.02, T:0.69
Consensus pattern (13 bp):
TTTTTTTATTATT
Found at i:10224 original size:3 final size:3
Alignment explanation
Indices: 10107--10210 Score: 117
Period size: 3 Copynumber: 35.0 Consensus size: 3
10097 TATTTGTTTT
* * *
10107 TTA TTA TTT TTA TTA -TA TTA TTA TTA GTA TCA TT- TTA TT- TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
*
10150 CTA TTA TTA TTA TT- TTA TTA TTTA TTTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA -TTA TTA TTA TTA TTA TTA TTA
10196 TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA
10211 AAAAAATATT
Statistics
Matches: 87, Mismatches: 8, Indels: 12
0.81 0.07 0.11
Matches are distributed among these distances:
2 7 0.08
3 73 0.84
4 7 0.08
ACGTcount: A:0.31, C:0.02, G:0.01, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:11519 original size:23 final size:21
Alignment explanation
Indices: 11461--11520 Score: 66
Period size: 23 Copynumber: 2.7 Consensus size: 21
11451 TTATTTGCAA
*
11461 TATTATTTTATTATTGCTTTT
1 TATTATTTTATTATTACTTTT
*
11482 GATATATTTTAATTATTACTTTCAT
1 TAT-TATTTT-ATTATTACTTT--T
11507 TATTATTTTATTAT
1 TATTATTTTATTAT
11521 CATTTTCGTA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
21 2 0.06
22 6 0.19
23 15 0.47
24 6 0.19
25 3 0.09
ACGTcount: A:0.27, C:0.05, G:0.03, T:0.65
Consensus pattern (21 bp):
TATTATTTTATTATTACTTTT
Found at i:11527 original size:23 final size:22
Alignment explanation
Indices: 11460--11533 Score: 62
Period size: 23 Copynumber: 3.3 Consensus size: 22
11450 TTTATTTGCA
*
11460 ATATTATTTTATTATTGC-TTTTG
1 ATATTATTTTATTA-T-CATTTTC
* *
11483 ATA-TATTTTAATTATTACTTTC
1 ATATTATTTT-ATTATCATTTTC
11505 ATTATTATTTTATTATCATTTTC
1 A-TATTATTTTATTATCATTTTC
*
11528 GTATTA
1 ATATTA
11534 GTCATATAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
22 16 0.39
23 19 0.46
24 6 0.15
ACGTcount: A:0.27, C:0.07, G:0.04, T:0.62
Consensus pattern (22 bp):
ATATTATTTTATTATCATTTTC
Found at i:11550 original size:2 final size:2
Alignment explanation
Indices: 11537--11578 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
11527 CGTATTAGTC
* *
11537 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11579 TTGTTTAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11860 original size:147 final size:147
Alignment explanation
Indices: 11590--11969 Score: 385
Period size: 147 Copynumber: 2.6 Consensus size: 147
11580 TGTTTAAATA
11590 ATAATA-TTATTTATTTTT-AATATTAAG-AAATGACAGTCTTAATA-TAACTAGATGTCCTATT
1 ATAATATTTATTTATTTTTCAATATTAAGAAAATG-CAGTCTTAA-AGTAACTAGATGTCCTATT
* * * * * *
11651 CTGATATTTT-TAATAAATAAATATTATTAAAATTATATATTTAATTTTATTTAAATAATATTTT
64 CTGATATTTTAAAATAAATAAATATTATTAAAATAACATATATAATTTCACTTAAAT-ATA-TTT
11715 TTAGAAAAA--ATTATTATTTT
127 TTAGAAAAATTATTA-TATTTT
11735 -TAATATTTATTTATTTTTCAAATATTAAGAAAATGCAGTCTTAAAGTAACTAGATGTCCTATTC
1 ATAATATTTATTTATTTTTC-AATATTAAGAAAATGCAGTCTTAAAGTAACTAGATGTCCTATTC
* * *
11799 TGGTATTTTAAAAATAAATAAATATTCTGCTTATAAA-AACATATAT-A-TTCACTT-CAT-TAT
65 TGATATTTT-AAAATAAATAAATA-T-T-ATTA-AAATAACATATATAATTTCACTTAAATATAT
*
11859 TTTTAGGAAAATTATTATATTTT
125 TTTTAGAAAAATTATTATATTTT
* * * *
11882 CATAAATATTTATTTA-TTTACTAATATTAAAGAAAATACAGTCTTAAAGTAACTAGATGT-TTT
1 -AT-AATATTTATTTATTTTTC-AATATT-AAGAAAATGCAGTCTTAAAGTAACTAGATGTCCTA
11945 TTCTGATATTTTTAAAATAAATAAA
62 TTCTGATA-TTTTAAAATAAATAAA
11970 CGTAATATTT
Statistics
Matches: 201, Mismatches: 16, Indels: 32
0.81 0.06 0.13
Matches are distributed among these distances:
144 5 0.02
145 12 0.06
146 12 0.06
147 52 0.26
148 9 0.04
149 45 0.22
150 52 0.26
151 2 0.01
152 9 0.04
153 3 0.01
ACGTcount: A:0.42, C:0.07, G:0.06, T:0.46
Consensus pattern (147 bp):
ATAATATTTATTTATTTTTCAATATTAAGAAAATGCAGTCTTAAAGTAACTAGATGTCCTATTCT
GATATTTTAAAATAAATAAATATTATTAAAATAACATATATAATTTCACTTAAATATATTTTTAG
AAAAATTATTATATTTT
Found at i:12012 original size:150 final size:147
Alignment explanation
Indices: 11591--12017 Score: 345
Period size: 149 Copynumber: 2.9 Consensus size: 147
11581 GTTTAAATAA
*
11591 TAATA-TTATTTATTTT--TAATATTAAG-AAATGACAGTCTTAATA-TAACTAGATGTCCTATT
1 TAATATTTATTTATTTTACAAATATTAAGAAAAT-ACAGTCTTAA-AGTAACTAGATGTCCTATT
* * * * * * *
11651 CTGATATTTT--TAATAAATAAAT-AT-TATTA-AAATTATATATTTAATTTTA-TTTAAATAAT
64 CTGATATTTTAAAAATAAATAAATAATATCTTACAAA-AACATATAT-A-TTCACTAT-AAT-AT
11710 ATTTTTTAGAAAAAATTATTATTTT
124 -TTTTTTAGAAAAAATTATTATTTT
* *
11735 TAATATTTATTTATTTTTCAAATATTAAGAAAATGCAGTCTTAAAGTAACTAGATGTCCTATTCT
1 TAATATTTATTTATTTTACAAATATTAAGAAAATACAGTCTTAAAGTAACTAGATGTCCTATTCT
* * * * * *
11800 GGTATTTTAAAAATAAATAAATATTCTGCTTATAAAAACATATATATTCACT-TCAT-TATTTTT
66 GATATTTTAAAAATAAATAAATAATAT-CTTACAAAAACATATATATTCACTATAATATTTTTTT
*
11863 AG-GAAAATTATTATATTTT
130 AGAAAAAATTA-T-TATTTT
* * *
11882 CATAAATATTTATTTA-TTTACTAATATTAAAGAAAATACAGTCTTAAAGTAACTAGATGT-TTT
1 --T-AATATTTATTTATTTTACAAATATT-AAGAAAATACAGTCTTAAAGTAACTAGATGTCCTA
* * *
11945 TTCTGATATTTTTAAAATAAATAAACGTAATAT-TTACAAAACCCTATATATAT-A-TATAATAT
62 TTCTGATATTTTAAAAATAAATAAA--TAATATCTTACAAAAACATATATAT-TCACTATAATAT
12007 TTTTTTA-AAAA
124 TTTTTTAGAAAA
12018 TATCAATCTG
Statistics
Matches: 231, Mismatches: 28, Indels: 42
0.77 0.09 0.14
Matches are distributed among these distances:
144 5 0.02
145 18 0.08
146 9 0.04
147 51 0.22
148 5 0.02
149 67 0.29
150 57 0.25
151 7 0.03
152 9 0.04
153 3 0.01
ACGTcount: A:0.42, C:0.07, G:0.06, T:0.45
Consensus pattern (147 bp):
TAATATTTATTTATTTTACAAATATTAAGAAAATACAGTCTTAAAGTAACTAGATGTCCTATTCT
GATATTTTAAAAATAAATAAATAATATCTTACAAAAACATATATATTCACTATAATATTTTTTTA
GAAAAAATTATTATTTT
Found at i:17210 original size:14 final size:14
Alignment explanation
Indices: 17182--17219 Score: 58
Period size: 14 Copynumber: 2.6 Consensus size: 14
17172 CCAAATTTTA
*
17182 AAAAATACATTAATT
1 AAAAATA-ATGAATT
17197 AAAAATAATGAATT
1 AAAAATAATGAATT
17211 AAAAATAAT
1 AAAAATAAT
17220 CCATAAGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 15 0.68
15 7 0.32
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.29
Consensus pattern (14 bp):
AAAAATAATGAATT
Found at i:20688 original size:2 final size:2
Alignment explanation
Indices: 20681--20709 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
20671 ACCCATTTAG
20681 TA TA 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 T
20710 TTATTTATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:22417 original size:41 final size:41
Alignment explanation
Indices: 22363--22468 Score: 158
Period size: 41 Copynumber: 2.6 Consensus size: 41
22353 ATTTACGTTG
* *
22363 CATTTTGCATTGCGATAGTTGAAAATCACGTTGCGTTTTTC
1 CATTTTGCGTTGCGATAGTTGAAAATCACGTTGCGATTTTC
* * *
22404 CATTTTGCGTTGCGATAGTTGGAGATCGCGTTGCGATTTTC
1 CATTTTGCGTTGCGATAGTTGAAAATCACGTTGCGATTTTC
*
22445 CATTTCGCGTTGCGATAGTTGAAA
1 CATTTTGCGTTGCGATAGTTGAAA
22469 TCGCAACGCG
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 57 1.00
ACGTcount: A:0.20, C:0.17, G:0.25, T:0.39
Consensus pattern (41 bp):
CATTTTGCGTTGCGATAGTTGAAAATCACGTTGCGATTTTC
Found at i:22454 original size:20 final size:20
Alignment explanation
Indices: 22391--22460 Score: 68
Period size: 20 Copynumber: 3.5 Consensus size: 20
22381 TTGAAAATCA
* *
22391 CGTTGCGTTTTTCCATTTTG
1 CGTTGCGATTTTCCATTTCG
* ** **
22411 CGTTGCGATAGTTGGAGATCG
1 CGTTGCGAT-TTTCCATTTCG
22432 CGTTGCGATTTTCCATTTCG
1 CGTTGCGATTTTCCATTTCG
22452 CGTTGCGAT
1 CGTTGCGAT
22461 AGTTGAAATC
Statistics
Matches: 37, Mismatches: 12, Indels: 2
0.73 0.24 0.04
Matches are distributed among these distances:
20 23 0.62
21 14 0.38
ACGTcount: A:0.11, C:0.20, G:0.27, T:0.41
Consensus pattern (20 bp):
CGTTGCGATTTTCCATTTCG
Found at i:22472 original size:20 final size:21
Alignment explanation
Indices: 22410--22472 Score: 58
Period size: 20 Copynumber: 3.1 Consensus size: 21
22400 TTTCCATTTT
* *
22410 GCGTTGCGATAGTTGGAGATC
1 GCGTTGCGATAGTTCGAAATC
* * **
22431 GCGTTGCGAT-TTTCCATTTC
1 GCGTTGCGATAGTTCGAAATC
22451 GCGTTGCGATAGTT-GAAATC
1 GCGTTGCGATAGTTCGAAATC
22471 GC
1 GC
22473 AACGCGATCT
Statistics
Matches: 32, Mismatches: 9, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
20 20 0.62
21 12 0.38
ACGTcount: A:0.17, C:0.19, G:0.30, T:0.33
Consensus pattern (21 bp):
GCGTTGCGATAGTTCGAAATC
Found at i:22525 original size:21 final size:21
Alignment explanation
Indices: 22509--22603 Score: 129
Period size: 21 Copynumber: 4.6 Consensus size: 21
22499 GCGTTGTATT
22509 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
* * ** **
22530 TCGCGTTGTGAT-TTTCTATT
1 TCGCGTTGCGATAGTTGAAAA
22550 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
22571 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
22592 TCGCGTTGCGAT
1 TCGCGTTGCGAT
22604 TTTCCATTTC
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
20 14 0.23
21 47 0.77
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.35
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTGAAAA
Found at i:22588 original size:62 final size:62
Alignment explanation
Indices: 22509--22626 Score: 218
Period size: 62 Copynumber: 1.9 Consensus size: 62
22499 GCGTTGTATT
* *
22509 TCGCGTTGCGATAGTTGAAAATCGCGTTGTGATTTTCTATTTCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
22571 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGT
1 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGT
22627 CTACAGTTGT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
62 54 1.00
ACGTcount: A:0.20, C:0.17, G:0.26, T:0.36
Consensus pattern (62 bp):
TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
Found at i:22744 original size:6 final size:6
Alignment explanation
Indices: 22733--22761 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
22723 GAAGACACGT
22733 ACGACC ACGACC ACGACC ACGACC -CGACC
1 ACGACC ACGACC ACGACC ACGACC ACGACC
22762 CGAGACGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.31, C:0.52, G:0.17, T:0.00
Consensus pattern (6 bp):
ACGACC
Found at i:23397 original size:19 final size:19
Alignment explanation
Indices: 23373--23479 Score: 79
Period size: 19 Copynumber: 5.3 Consensus size: 19
23363 TTAACTATCA
23373 CAACGAATTTGGAAAATCG
1 CAACGAATTTGGAAAATCG
* * **
23392 CAACGACAACTGTAGACTATCG
1 CAACG--AA-TTTGGAAAATCG
23414 CAACGAATTTGGAAAATCG
1 CAACGAATTTGGAAAATCG
* * **
23433 CAACGACAACTGTAGACTATCG
1 CAACG--AA-TTTGGAAAATCG
*
23455 CAACGAATTTGGAGAATCG
1 CAACGAATTTGGAAAATCG
23474 CAACGA
1 CAACGA
23480 CAACTGTAGA
Statistics
Matches: 66, Mismatches: 16, Indels: 12
0.70 0.17 0.13
Matches are distributed among these distances:
19 32 0.48
20 4 0.06
21 4 0.06
22 26 0.39
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.19
Consensus pattern (19 bp):
CAACGAATTTGGAAAATCG
Found at i:23527 original size:82 final size:82
Alignment explanation
Indices: 23366--23623 Score: 355
Period size: 82 Copynumber: 3.1 Consensus size: 82
23356 CTTTTTTTTA
* *
23366 ACTATCACAACGAATTTGGAAAATCGCAACGACAACTGTAGACTATCGCAA--CGAATTTGGAAA
1 ACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTATCGCAACGCGAA-ATGGAAA
*
23429 ATCGCAACGACAACTGTAG
65 ATCGCAACG-CGACTGTAG
* *
23448 ACTATCGCAACGAATTTGGAGAATCGCAACGACAACTGTAGACTTTCGCAACGCGAAATGGAAAA
1 ACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTATCGCAACGCGAAATGGAAAA
23513 TCGCAACGCGACTGTAG
66 TCGCAACGCGACTGTAG
* *
23530 ACTATCGCAACGCGAA-ATGGAAAATCGCAACG-CGACTGTAGACTATCGCAACGCGAAATGGAA
1 ACTATCGCAA--CGAATTTGGAAAATCGCAACGACAACTGTAGACTATCGCAACGCGAAATGGAA
* *
23593 AATCGCAACGCGATTTTCA-
64 AATCGCAACGCGACTGT-AG
23612 ACTATCGCAACG
1 ACTATCGCAACG
23624 CGATTTTCAA
Statistics
Matches: 160, Mismatches: 11, Indels: 12
0.87 0.06 0.07
Matches are distributed among these distances:
80 2 0.01
82 120 0.75
83 30 0.19
84 8 0.05
ACGTcount: A:0.37, C:0.24, G:0.21, T:0.18
Consensus pattern (82 bp):
ACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTATCGCAACGCGAAATGGAAAA
TCGCAACGCGACTGTAG
Found at i:23538 original size:21 final size:21
Alignment explanation
Indices: 23388--23647 Score: 123
Period size: 21 Copynumber: 12.6 Consensus size: 21
23378 AATTTGGAAA
*
23388 ATCGCAACGACAACTGTAGACT
1 ATCGCAACG-CGACTGTAGACT
* * * **
23410 ATCGCAA--CGAATTTGGAAA
1 ATCGCAACGCGACTGTAGACT
*
23429 ATCGCAACGACAACTGTAGACT
1 ATCGCAACG-CGACTGTAGACT
* * *
23451 ATCGCAACG-AATTTGGAGA--
1 ATCGCAACGCGA-CTGTAGACT
*
23470 ATCGCAACGACAACTGTAGACT
1 ATCGCAACG-CGACTGTAGACT
* * **
23492 TTCGCAACGCGAAATG--GAAA
1 ATCGCAACGCG-ACTGTAGACT
23512 ATCGCAACGCGACTGTAGACT
1 ATCGCAACGCGACTGTAGACT
* **
23533 ATCGCAACGCGAAATG--GAAA
1 ATCGCAACGCG-ACTGTAGACT
23553 ATCGCAACGCGACTGTAGACT
1 ATCGCAACGCGACTGTAGACT
* **
23574 ATCGCAACGCGAAATG--GAAA
1 ATCGCAACGCG-ACTGTAGACT
* *
23594 ATCGCAACGCGATTTTCA-ACT
1 ATCGCAACGCGACTGT-AGACT
* *
23615 ATCGCAACGCGATTTTCA-ACT
1 ATCGCAACGCGACTGT-AGACT
23636 ATCGCAACGCGA
1 ATCGCAACGCGA
23648 AATGGAAAAT
Statistics
Matches: 182, Mismatches: 38, Indels: 37
0.71 0.15 0.14
Matches are distributed among these distances:
19 30 0.16
20 45 0.25
21 68 0.37
22 39 0.21
ACGTcount: A:0.36, C:0.25, G:0.21, T:0.18
Consensus pattern (21 bp):
ATCGCAACGCGACTGTAGACT
Found at i:23605 original size:41 final size:42
Alignment explanation
Indices: 23382--23602 Score: 328
Period size: 41 Copynumber: 5.4 Consensus size: 42
23372 ACAACGAATT
*
23382 TGGAAAATCGCAACGACAACTGTAGACTATCGCAA--CGAATT
1 TGGAAAATCGCAACGACAACTGTAGACTATCGCAACGCGAA-A
*
23423 TGGAAAATCGCAACGACAACTGTAGACTATCGCAA--CGAATT
1 TGGAAAATCGCAACGACAACTGTAGACTATCGCAACGCGAA-A
* *
23464 TGGAGAATCGCAACGACAACTGTAGACTTTCGCAACGCGAAA
1 TGGAAAATCGCAACGACAACTGTAGACTATCGCAACGCGAAA
*
23506 TGGAAAATCGCAACG-CGACTGTAGACTATCGCAACGCGAAA
1 TGGAAAATCGCAACGACAACTGTAGACTATCGCAACGCGAAA
*
23547 TGGAAAATCGCAACG-CGACTGTAGACTATCGCAACGCGAAA
1 TGGAAAATCGCAACGACAACTGTAGACTATCGCAACGCGAAA
23588 TGGAAAATCGCAACG
1 TGGAAAATCGCAACG
23603 CGATTTTCAA
Statistics
Matches: 172, Mismatches: 6, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
41 154 0.90
42 14 0.08
43 4 0.02
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (42 bp):
TGGAAAATCGCAACGACAACTGTAGACTATCGCAACGCGAAA
Found at i:23622 original size:62 final size:62
Alignment explanation
Indices: 23553--23688 Score: 238
Period size: 62 Copynumber: 2.2 Consensus size: 62
23543 GAAATGGAAA
23553 ATCGCAACGCGACTGT-AGACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGACTGTCA-ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
* *
23615 ATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGACTGTCAACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
23677 ATCGCAACGCGA
1 ATCGCAACGCGA
23689 AATGGAAAAT
Statistics
Matches: 71, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
62 70 0.99
63 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.20
Consensus pattern (62 bp):
ATCGCAACGCGACTGTCAACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
Found at i:23640 original size:103 final size:103
Alignment explanation
Indices: 23512--23708 Score: 326
Period size: 103 Copynumber: 1.9 Consensus size: 103
23502 GAAATGGAAA
23512 ATCGCAACGCGACTGTAGACTATCGCAACGCGAAATGGAAAATCGCAACGCGACTGT-AGACTAT
1 ATCGCAACGCGACTGTAGACTATCGCAACGCGAAATGGAAAATCGCAACGCGACTGTCA-ACTAT
23576 CGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
65 CGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
* * * *
23615 ATCGCAACGCGATTTTCA-ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTAT
1 ATCGCAACGCGACTGT-AGACTATCGCAACGCGAAATGGAAAATCGCAACGCGACTGTCAACTAT
23679 CGCAACGCGAAATGGAAAATCGCAACGCGA
65 CGCAACGCGAAATGGAAAATCGCAACGCGA
23709 AATGCAACGC
Statistics
Matches: 88, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
103 86 0.98
104 2 0.02
ACGTcount: A:0.36, C:0.25, G:0.21, T:0.18
Consensus pattern (103 bp):
ATCGCAACGCGACTGTAGACTATCGCAACGCGAAATGGAAAATCGCAACGCGACTGTCAACTATC
GCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
Found at i:23660 original size:41 final size:41
Alignment explanation
Indices: 23615--23708 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
23605 ATTTTCAACT
23615 ATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAA
23656 ATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAA
23697 ATCGCAACGCGA
1 ATCGCAACGCGA
23709 AATGCAACGC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.18
Consensus pattern (41 bp):
ATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAA
Found at i:23660 original size:82 final size:81
Alignment explanation
Indices: 23423--23667 Score: 221
Period size: 82 Copynumber: 3.0 Consensus size: 81
23413 GCAACGAATT
* * * *
23423 TGGAAAATCGCAACGACAACTGTAGACTATCGCAA--CGAATTTGGAGAATCGCAACGAC-AACT
1 TGGAAAATCGCAACG-CGACTGTAGACTATCGCAACGCGAA-ATGCAAAATCGCAACG-CGAA-T
***
23485 GTAGACTTTCGCAACGCGAAA
62 G-AGAAAATCGCAACGCGAAA
* *
23506 TGGAAAATCGCAACGCGACTGTAGACTATCGCAACGCGAAATGGAAAATCGCAACGCGACTGTAG
1 TGGAAAATCGCAACGCGACTGTAGACTATCGCAACGCGAAATGCAAAATCGCAACGCGAATG-AG
**
23571 ACTATCGCAACGCGAAA
65 AAAATCGCAACGCGAAA
* * ** * *
23588 TGGAAAATCGCAACGCGATTTTCA-ACTATCGCAACGCGATTTTCAACTATCGCAACGCGAAATG
1 TGGAAAATCGCAACGCGACTGT-AGACTATCGCAACGCGAAATGCAA-AATCGCAACGCG-AATG
23652 -GAAAATCGCAACGCGA
63 AGAAAATCGCAACGCGA
23668 TTTTCAACTA
Statistics
Matches: 141, Mismatches: 15, Indels: 13
0.83 0.09 0.08
Matches are distributed among these distances:
82 92 0.65
83 42 0.30
84 7 0.05
ACGTcount: A:0.36, C:0.24, G:0.22, T:0.18
Consensus pattern (81 bp):
TGGAAAATCGCAACGCGACTGTAGACTATCGCAACGCGAAATGCAAAATCGCAACGCGAATGAGA
AAATCGCAACGCGAAA
Found at i:23682 original size:21 final size:21
Alignment explanation
Indices: 23594--23688 Score: 138
Period size: 21 Copynumber: 4.6 Consensus size: 21
23584 GAAATGGAAA
23594 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
23615 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
** ** *
23636 ATCGCAACGCGAAATGGAA-A
1 ATCGCAACGCGATTTTCAACT
23656 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
23677 ATCGCAACGCGA
1 ATCGCAACGCGA
23689 AATGGAAAAT
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
20 15 0.24
21 48 0.76
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (21 bp):
ATCGCAACGCGATTTTCAACT
Found at i:25736 original size:14 final size:15
Alignment explanation
Indices: 25640--25742 Score: 109
Period size: 15 Copynumber: 6.5 Consensus size: 15
25630 TAATAAGGTT
25640 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
25655 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
25670 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
* *
25685 AATTATTATAAAATATGGA
1 ATTTATT-TTAAA-AT--A
25704 TTGATTTATTTTAAAATA
1 ---ATTTATTTTAAAATA
25722 ATTTATTTT-AAATA
1 ATTTATTTTAAAATA
25736 ATTTATT
1 ATTTATT
25743 AGTATGTATT
Statistics
Matches: 75, Mismatches: 6, Indels: 15
0.78 0.06 0.16
Matches are distributed among these distances:
14 12 0.16
15 43 0.57
16 4 0.05
17 2 0.03
18 1 0.01
19 1 0.01
20 2 0.03
21 4 0.05
22 6 0.08
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:25760 original size:32 final size:31
Alignment explanation
Indices: 25722--26374 Score: 452
Period size: 32 Copynumber: 23.7 Consensus size: 31
25712 TTTTAAAATA
25722 ATTTATTTTAAATAATTTATTAGTATGTATTG
1 ATTTATTTTAAATAATTTATTAGTATG-ATTG
25754 ATTTATTTT--A-AA---A-TA-TA-GATTG
1 ATTTATTTTAAATAATTTATTAGTATGATTG
25776 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTAT-GATTG
25808 ATTTATTTTAAA-AA--TA-T-G---GATTG
1 ATTTATTTTAAATAATTTATTAGTATGATTG
*
25831 ATTTATTTTAAATAATTTATTAGTATTGATTA
1 ATTTATTTTAAATAATTTATTAGTA-TGATTG
25863 ATTTATTTTAAATAATTTATTAGTATAGATTG
1 ATTTATTTTAAATAATTTATTAGTAT-GATTG
25895 ATTTATTTT-AA-AA--TA-T-G---GATTG
1 ATTTATTTTAAATAATTTATTAGTATGATTG
25917 ATTTATTTTAAA--A--TA-T-G---GATTG
1 ATTTATTTTAAATAATTTATTAGTATGATTG
25939 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTAT-GATTG
* * *
25971 ATTGA-TTT--AT--TTTA-AAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTAT-GATTG
25997 ATTTATTTT--A-AA---A-TA-TA-GATTG
1 ATTTATTTTAAATAATTTATTAGTATGATTG
*
26019 ATTTATTTTAAATATTTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTAT-GATTG
26051 ATTTATTTTAAATAATTTATTAGTATGAATTG
1 ATTTATTTTAAATAATTTATTAGTATG-ATTG
26083 ATTTATTTT-AA-AA--TA-T-G---GATTG
1 ATTTATTTTAAATAATTTATTAGTATGATTG
26105 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTAT-GATTG
*
26137 ATTTATATT-AA-AA--TA-T-G---GATTG
1 ATTTATTTTAAATAATTTATTAGTATGATTG
*
26159 ATTTATTTTAAATAATATATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTAT-GATTG
26191 ATTTATTTT-AA-AA--TA-T-G---GATTG
1 ATTTATTTTAAATAATTTATTAGTATGATTG
26213 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTAT-GATTG
26245 ATTTATTTT-AA-AA--TA-T-G---GATTG
1 ATTTATTTTAAATAATTTATTAGTATGATTG
*
26267 ATTTATTTTAAATAATTTATTAGTATATATTG
1 ATTTATTTTAAATAATTTATTAGTAT-GATTG
26299 ATTTATTTT-AA-AA--TA-T-G---GATTG
1 ATTTATTTTAAATAATTTATTAGTATGATTG
26321 ATTTATTTTAAATAATTTATTAGTATGAATTG
1 ATTTATTTTAAATAATTTATTAGTATG-ATTG
26353 ATTTATTTTAAATAATTTATTA
1 ATTTATTTTAAATAATTTATTA
26375 TTGTAGTTGT
Statistics
Matches: 513, Mismatches: 13, Indels: 190
0.72 0.02 0.27
Matches are distributed among these distances:
22 130 0.25
23 31 0.06
24 19 0.04
25 7 0.01
26 35 0.07
27 22 0.04
28 22 0.04
29 10 0.02
30 17 0.03
31 20 0.04
32 200 0.39
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (31 bp):
ATTTATTTTAAATAATTTATTAGTATGATTG
Found at i:25787 original size:54 final size:54
Alignment explanation
Indices: 25722--26364 Score: 888
Period size: 54 Copynumber: 11.8 Consensus size: 54
25712 TTTTAAAATA
* *
25722 ATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTTTAAAATATAGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
25776 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AAAATATGGATTG
* * *
25831 ATTTATTTTAAATAATTTATTAGTATTGATTAATTTATTTT-AAATA---ATTT
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* * * * *
25881 A-TTAGTATAGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTA-AATAATTTA--TT--AGTATGGATTGATTTATTTTAAAATATGGATTG
25939 ATTTATTTTAAATAATTTATTAGTATGGATTGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTAT-G---GATTGATTTATTTTAAAATATGGATTG
** ** * ** * *
25997 ATTTATTTTAAA-ATATAGATT-G-ATTTATTTTAAATATTTTATTAGTATGGATTG
1 ATTTATTTTAAATA-ATTTATTAGTATGGA-TTGATTTATTTTA-AAATATGGATTG
*
26051 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
26105 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATATTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
26159 ATTTATTTTAAATAATATATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
26213 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
**
26267 ATTTATTTTAAATAATTTATTAGTATATATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
26321 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAA
26365 TAATTTATTA
Statistics
Matches: 523, Mismatches: 45, Indels: 42
0.86 0.07 0.07
Matches are distributed among these distances:
49 6 0.01
50 11 0.02
52 3 0.01
53 15 0.03
54 349 0.67
55 69 0.13
56 7 0.01
57 2 0.00
58 55 0.11
59 6 0.01
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (54 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
Found at i:25850 original size:14 final size:14
Alignment explanation
Indices: 25831--25883 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 14
25821 ATATGGATTG
25831 ATTTATTTTAAATA
1 ATTTATTTTAAATA
* *
25845 ATTTATTAGTATTGATTA
1 ATTTA-T--T-TTAAATA
25863 ATTTATTTTAAATA
1 ATTTATTTTAAATA
25877 ATTTATT
1 ATTTATT
25884 AGTATAGATT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
14 17 0.55
15 2 0.06
17 2 0.06
18 10 0.32
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (14 bp):
ATTTATTTTAAATA
Found at i:25902 original size:22 final size:22
Alignment explanation
Indices: 25890--25950 Score: 122
Period size: 22 Copynumber: 2.8 Consensus size: 22
25880 TATTAGTATA
25890 GATTGATTTATTTTAAAATATG
1 GATTGATTTATTTTAAAATATG
25912 GATTGATTTATTTTAAAATATG
1 GATTGATTTATTTTAAAATATG
25934 GATTGATTTATTTTAAA
1 GATTGATTTATTTTAAA
25951 TAATTTATTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.36, C:0.00, G:0.13, T:0.51
Consensus pattern (22 bp):
GATTGATTTATTTTAAAATATG
Found at i:25915 original size:18 final size:20
Alignment explanation
Indices: 25893--26030 Score: 83
Period size: 22 Copynumber: 6.7 Consensus size: 20
25883 TAGTATAGAT
25893 TGATTTATTTTAAAATATGG
1 TGATTTATTTTAAAATATGG
25913 ATTGATTTATTTTAAAATATGG
1 --TGATTTATTTTAAAATATGG
25935 ATTGATTTATTTT-AAATA---
1 --TGATTTATTTTAAAATATGG
* ** *
25953 --ATTTATTAGTATGGAT-TGAT
1 TGATTTATT-TTA-AAATATG-G
25973 TGATTTATTTTAAAATATGG
1 TGATTTATTTTAAAATATGG
*
25993 ATTGATTTATTTTAAAATATAGAT
1 --TGATTTATTTTAAAATAT-G-G
26017 TGATTTATTTTAAA
1 TGATTTATTTTAAA
26031 TATTTTATTA
Statistics
Matches: 94, Mismatches: 8, Indels: 28
0.72 0.06 0.22
Matches are distributed among these distances:
14 7 0.07
15 1 0.01
17 2 0.02
20 2 0.02
21 9 0.10
22 72 0.77
23 1 0.01
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.51
Consensus pattern (20 bp):
TGATTTATTTTAAAATATGG
Found at i:25995 original size:22 final size:22
Alignment explanation
Indices: 25970--26030 Score: 113
Period size: 22 Copynumber: 2.8 Consensus size: 22
25960 AGTATGGATT
*
25970 GATTGATTTATTTTAAAATATG
1 GATTGATTTATTTTAAAATATA
25992 GATTGATTTATTTTAAAATATA
1 GATTGATTTATTTTAAAATATA
26014 GATTGATTTATTTTAAA
1 GATTGATTTATTTTAAA
26031 TATTTTATTA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (22 bp):
GATTGATTTATTTTAAAATATA
Found at i:26099 original size:22 final size:22
Alignment explanation
Indices: 26074--26116 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
26064 AATTTATTAG
26074 TATGAATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
*
26096 TATGGATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
26117 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:26154 original size:22 final size:22
Alignment explanation
Indices: 26128--26170 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
26118 AATTTATTAG
26128 TATGGATTGATTTATATTAAAA
1 TATGGATTGATTTATATTAAAA
*
26150 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATATTAAA
26171 TAATATATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (22 bp):
TATGGATTGATTTATATTAAAA
Found at i:26210 original size:22 final size:22
Alignment explanation
Indices: 26182--26224 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
26172 AATATATTAG
26182 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
26204 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
26225 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:26261 original size:22 final size:22
Alignment explanation
Indices: 26236--26278 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
26226 AATTTATTAG
26236 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
26258 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
26279 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:26340 original size:14 final size:14
Alignment explanation
Indices: 26321--26373 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 14
26311 ATATGGATTG
26321 ATTTATTTTAAATA
1 ATTTATTTTAAATA
* *
26335 ATTTATTAGTATGAATTG
1 ATTTATT--T-T-AAATA
26353 ATTTATTTTAAATA
1 ATTTATTTTAAATA
26367 ATTTATT
1 ATTTATT
26374 ATTGTAGTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
14 17 0.55
15 1 0.03
16 2 0.06
17 1 0.03
18 10 0.32
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.57
Consensus pattern (14 bp):
ATTTATTTTAAATA
Found at i:26424 original size:31 final size:31
Alignment explanation
Indices: 26389--26447 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
26379 AGTTGTATGG
*
26389 ATTATTTAAATTTCAGTATTGTAAAACTAAA
1 ATTATTTAAATCTCAGTATTGTAAAACTAAA
26420 ATTATTTAAATCTCAGTATTGTAAAACT
1 ATTATTTAAATCTCAGTATTGTAAAACT
26448 CTTTTAAGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.42
Consensus pattern (31 bp):
ATTATTTAAATCTCAGTATTGTAAAACTAAA
Found at i:27516 original size:14 final size:14
Alignment explanation
Indices: 27497--27548 Score: 50
Period size: 14 Copynumber: 3.5 Consensus size: 14
27487 AAAATATTTT
27497 TTTAAATATTTAAA
1 TTTAAATATTTAAA
* *
27511 TTTAAATAATTATA
1 TTTAAATATTTAAA
27525 TTAATAATATATTTAAA
1 TT--TAA-ATATTTAAA
*
27542 TTCAAAT
1 TTTAAAT
27549 TATCAAGTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
14 16 0.53
15 2 0.07
16 3 0.10
17 9 0.30
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (14 bp):
TTTAAATATTTAAA
Found at i:29387 original size:20 final size:19
Alignment explanation
Indices: 29350--29388 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
29340 ATATATTTTA
*
29350 TTACTTTAAATAATTAAAT
1 TTACTTTAAATAAATAAAT
*
29369 TTACTATTACATAAATAAAT
1 TTACT-TTAAATAAATAAAT
29389 CATAGAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.44
Consensus pattern (19 bp):
TTACTTTAAATAAATAAAT
Found at i:29748 original size:28 final size:28
Alignment explanation
Indices: 29716--29789 Score: 85
Period size: 29 Copynumber: 2.6 Consensus size: 28
29706 GTTATGAAGT
*
29716 TATAAAAATTAAGGGCCCTAGTTATAAA
1 TATAAAAATTAAGGGCCCTAATTATAAA
* **
29744 TATAAAAATTTGAGAACCCTAATTATAAA
1 TATAAAAA-TTAAGGGCCCTAATTATAAA
* *
29773 TAAAAAAATTAGGGGCC
1 TATAAAAATTAAGGGCC
29790 TTGAGAGGTT
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
28 13 0.36
29 23 0.64
ACGTcount: A:0.49, C:0.11, G:0.14, T:0.27
Consensus pattern (28 bp):
TATAAAAATTAAGGGCCCTAATTATAAA
Found at i:30328 original size:23 final size:23
Alignment explanation
Indices: 30300--30356 Score: 114
Period size: 23 Copynumber: 2.5 Consensus size: 23
30290 ACTAAAATAA
30300 AATCAATCAATGCATATAAAATC
1 AATCAATCAATGCATATAAAATC
30323 AATCAATCAATGCATATAAAATC
1 AATCAATCAATGCATATAAAATC
30346 AATCAATCAAT
1 AATCAATCAAT
30357 CCTCATACCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.53, C:0.18, G:0.04, T:0.26
Consensus pattern (23 bp):
AATCAATCAATGCATATAAAATC
Found at i:31211 original size:2 final size:2
Alignment explanation
Indices: 31204--31304 Score: 202
Period size: 2 Copynumber: 50.5 Consensus size: 2
31194 CTAATCAAGT
31204 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
31246 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
31288 TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
31305 CTTAAAAGCA
Statistics
Matches: 99, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 99 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:35136 original size:31 final size:31
Alignment explanation
Indices: 35091--35170 Score: 92
Period size: 31 Copynumber: 2.6 Consensus size: 31
35081 TTCGATAATA
* *
35091 TAATAATTATTTTATAGT-ATTTAGATAAATT
1 TAATAAGTATTTTATAATCATTTA-ATAAATT
* *
35122 T-ATTAGTAATTTTATAATCTTTTAATAAATT
1 TAATAAGT-ATTTTATAATCATTTAATAAATT
35153 TAATAAGTATTTTATAAT
1 TAATAAGTATTTTATAAT
35171 TTTTAAACGT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
30 4 0.10
31 28 0.68
32 9 0.22
ACGTcount: A:0.41, C:0.01, G:0.05, T:0.53
Consensus pattern (31 bp):
TAATAAGTATTTTATAATCATTTAATAAATT
Found at i:35362 original size:25 final size:23
Alignment explanation
Indices: 35317--35370 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
35307 TTTTGGTTTT
35317 AATATTATATATCATTTAAAAAA
1 AATATTATATATCATTTAAAAAA
*
35340 AATATTATATATCATTTTAAAAA
1 AATATTATATATCATTTAAAAAA
35363 AATATTAT
1 AATATTAT
35371 TAAATCAATC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.43
Consensus pattern (23 bp):
AATATTATATATCATTTAAAAAA
Found at i:40920 original size:21 final size:21
Alignment explanation
Indices: 40894--40976 Score: 78
Period size: 21 Copynumber: 3.9 Consensus size: 21
40884 TTTTGGTGCA
* *
40894 GAGGGAATCGATCCCCCCCAT
1 GAGGGAACCGATTCCCCCCAT
**
40915 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATTCCCCCCAT
40936 GAAGAGGAACCGATTCCCCCCAT
1 G-AG-GGAACCGATTCCCCCCAT
* *
40959 -AGGGGAATCGATACCCCC
1 GA-GGGAACCGATTCCCCC
40977 TTGGGGTTCT
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
21 32 0.63
22 3 0.06
23 16 0.31
ACGTcount: A:0.25, C:0.35, G:0.24, T:0.16
Consensus pattern (21 bp):
GAGGGAACCGATTCCCCCCAT
Found at i:44851 original size:31 final size:30
Alignment explanation
Indices: 44809--44895 Score: 95
Period size: 31 Copynumber: 2.8 Consensus size: 30
44799 TCAATAAAAT
44809 TTAAAAAATTATAAAATACTTATTAAATTTA
1 TTAAAAAATTATAAAATA-TTATTAAATTTA
* *
44840 TTAAAAGATTATAAAATTATTAATAAATTTA
1 TTAAAAAATTATAAAA-TATTATTAAATTTA
* *
44871 TCT-AAATACTATAAAATAATTATTA
1 T-TAAAAAATTATAAAAT-ATTATTA
44896 TACTATCGAA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
30 1 0.02
31 44 0.92
32 3 0.06
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.41
Consensus pattern (30 bp):
TTAAAAAATTATAAAATATTATTAAATTTA
Found at i:52838 original size:25 final size:26
Alignment explanation
Indices: 52785--52852 Score: 92
Period size: 24 Copynumber: 2.8 Consensus size: 26
52775 TTTTAATTTT
52785 AATATTAATTTTTTAA-A-TATATTA
1 AATATTAATTTTTTAATATTATATTA
52809 AATATTAATTTTTTAATATTATA-TA
1 AATATTAATTTTTTAATATTATATTA
*
52834 GATATTAA--TTTTAATATTA
1 AATATTAATTTTTTAATATTA
52853 ATTTTTTTAA
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
23 11 0.27
24 16 0.39
25 10 0.24
26 4 0.10
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (26 bp):
AATATTAATTTTTTAATATTATATTA
Found at i:52865 original size:62 final size:62
Alignment explanation
Indices: 52762--52954 Score: 306
Period size: 62 Copynumber: 3.2 Consensus size: 62
52752 ATTTTATATT
* * *
52762 ATATTATATTTGATTTTAATTTTAATATTAATTTTTTAAATATATTAAATATTAATTTTTTA
1 ATATTATATTAGATATTAATTTTAATATTAATTTTTTAAATAAATTAAATATTAATTTTTTA
52824 ATATTATA-TAGATATTAATTTTAATATTAATTTTTTTAAATAAATTAAATATTAATTTTTTA
1 ATATTATATTAGATATTAATTTTAATATTAA-TTTTTTAAATAAATTAAATATTAATTTTTTA
*
52886 ATATTATATTA-ATATTAATTTTAATATTAA-TTTTTAAATAAATTAAATAGTAA--TTTTA
1 ATATTATATTAGATATTAATTTTAATATTAATTTTTTAAATAAATTAAATATTAATTTTTTA
52944 ATATTATATTA
1 ATATTATATTA
52955 TAGATATTTA
Statistics
Matches: 125, Mismatches: 4, Indels: 8
0.91 0.03 0.06
Matches are distributed among these distances:
58 16 0.13
60 22 0.18
61 20 0.16
62 65 0.52
63 2 0.02
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (62 bp):
ATATTATATTAGATATTAATTTTAATATTAATTTTTTAAATAAATTAAATATTAATTTTTTA
Found at i:52875 original size:25 final size:26
Alignment explanation
Indices: 52835--52907 Score: 89
Period size: 25 Copynumber: 2.8 Consensus size: 26
52825 TATTATATAG
*
52835 ATATTAATTTTAATATTAATTTTTTTA
1 ATATTAA-ATTAATATTAATTTTTTTA
52862 A-A-TAAATTAAATATTAA-TTTTTTA
1 ATATTAAATT-AATATTAATTTTTTTA
*
52886 ATATTATATTAATATTAATTTT
1 ATATTAAATTAATATTAATTTT
52908 AATATTAATT
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
24 10 0.25
25 20 0.50
26 9 0.22
27 1 0.03
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (26 bp):
ATATTAAATTAATATTAATTTTTTTA
Found at i:52876 original size:37 final size:38
Alignment explanation
Indices: 52809--52922 Score: 105
Period size: 37 Copynumber: 3.1 Consensus size: 38
52799 AAATATATTA
* *
52809 AATATTAATTTTTTAATATTATATAGATATTAA-TTTT
1 AATATTAATTTTTTAATATAATATAAATATTAATTTTT
52846 AATATTAATTTTTTTAA-ATAA-ATTAAATATTAATTTTTT
1 AATATTAA-TTTTTTAATATAATA-TAAATATTAA-TTTTT
* * *
52885 AATATT-A--TATTAATATTAATTTTAATATTAATTTTT
1 AATATTAATTTTTTAATA-TAATATAAATATTAATTTTT
52921 AA
1 AA
52923 ATAAATTAAA
Statistics
Matches: 65, Mismatches: 5, Indels: 15
0.76 0.06 0.18
Matches are distributed among these distances:
35 5 0.08
36 9 0.14
37 32 0.49
38 9 0.14
39 10 0.15
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (38 bp):
AATATTAATTTTTTAATATAATATAAATATTAATTTTT
Found at i:52908 original size:23 final size:23
Alignment explanation
Indices: 52749--52954 Score: 85
Period size: 25 Copynumber: 8.9 Consensus size: 23
52739 GGTTTTATAT
52749 TTAATTTT-ATATTATATT-ATA
1 TTAATTTTAATATTATATTAATA
* *
52770 TTTGATTTTAATTTTAATATT-A-A
1 -TTAATTTTAATATT-ATATTAATA
52793 TT--TTTTAA-A-TATATTAAATA
1 TTAATTTTAATATTATATT-AATA
52813 TTAATTTTTTAATATTATA-TAGATA
1 TTAA--TTTTAATATTATATTA-ATA
* **
52838 TTAATTTTAATATTAATTTTTTTAA
1 TTAATTTTAATATT-ATATTAAT-A
* * * *
52863 ATAAATTAAATATTAATTTTTTAATA
1 TTAATTTTAATATT-A--TATTAATA
* *
52889 TT-ATATTAATATTAATTTTAATA
1 TTAATTTTAATATT-ATATTAATA
*
52912 TTAATTTTTAA-A-TAAATTAAATA
1 TTAA-TTTTAATATTATATT-AATA
*
52935 GTAATTTTAATATTATATTA
1 TTAATTTTAATATTATATTA
52955 TAGATATTTA
Statistics
Matches: 142, Mismatches: 20, Indels: 43
0.69 0.10 0.21
Matches are distributed among these distances:
17 5 0.04
18 1 0.01
19 1 0.01
20 9 0.06
22 18 0.13
23 35 0.25
24 23 0.16
25 39 0.27
26 6 0.04
27 5 0.04
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.56
Consensus pattern (23 bp):
TTAATTTTAATATTATATTAATA
Found at i:53503 original size:31 final size:31
Alignment explanation
Indices: 53466--53525 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
53456 TAGTTGTATG
* *
53466 AATTATTTAAATTTCAGTATTGTAAAACTAA
1 AATTATTTAAATCTCAGTATTGCAAAACTAA
53497 AATTATTTAAATCTCAGTATTGCAAAACT
1 AATTATTTAAATCTCAGTATTGCAAAACT
53526 CTTTTAAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (31 bp):
AATTATTTAAATCTCAGTATTGCAAAACTAA
Found at i:56294 original size:124 final size:123
Alignment explanation
Indices: 56145--56368 Score: 331
Period size: 124 Copynumber: 1.8 Consensus size: 123
56135 GACCTATTTC
* * * * * * * *
56145 CTTCTGTGATAGAGTCATTCAAAAGGTTGAATAAGTTCTTCTTATTTTGAACTTCTTCTTTCTTT
1 CTTCTGTGATAGAATCATGCAAAAGGTTGAACAAGCTCTTCTCATTGTGAACTTCTTC-TTCCTC
* *
56210 TTCAGATGAGTTCTTCTTATTATGAACTTCCTCTGGGAAGGTTTATGCTAATCTATCTG
65 TTCAAATAAGTTCTTCTTATTATGAACTTCCTCTGGGAAGGTTTATGCTAATCTATCTG
*
56269 CTTCTGTGATAGAATTATGCAAAAGGTTGAACAAGCTCTTCTCATTGTGAACTTCTTCTTCCTCT
1 CTTCTGTGATAGAATCATGCAAAAGGTTGAACAAGCTCTTCTCATTGTGAACTTCTTCTTCCTCT
*
56334 TCAAATAAGTTCTTCTTATTATGAACTTTCTCTGG
66 TCAAATAAGTTCTTCTTATTATGAACTTCCTCTGG
56369 AAATGTTGAT
Statistics
Matches: 88, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
123 37 0.42
124 51 0.58
ACGTcount: A:0.24, C:0.18, G:0.15, T:0.43
Consensus pattern (123 bp):
CTTCTGTGATAGAATCATGCAAAAGGTTGAACAAGCTCTTCTCATTGTGAACTTCTTCTTCCTCT
TCAAATAAGTTCTTCTTATTATGAACTTCCTCTGGGAAGGTTTATGCTAATCTATCTG
Found at i:56502 original size:113 final size:113
Alignment explanation
Indices: 56287--57040 Score: 1102
Period size: 113 Copynumber: 6.7 Consensus size: 113
56277 ATAGAATTAT
** * * * * *
56287 GCAAAAGGTTGAACAAGCTCTTCTCATTGTGAACTTCTTCTTCC-TCTTCAAATAAGTTCTTCTT
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * *
56351 ATTATGAACTTTCTCTGGAAATGTTGATCCATCAAGTGATGAATTTGA
66 ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGA
* * * * * *
56399 ACAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTT-TTCTTCATTATTCAGATGAATTCTTCT
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAA-TTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
****
56463 CATTATGAACTCGAACTGGAAAAGCTGATCCATCAAGTGATGGATTTGA
65 CATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGA
* *
56512 GCATAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTCCTTCAAGTAATGAGTTCTT
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTC-AG--ATGAGTTCTT
* *
56577 CTCATTATGAACTCTAC-CTGGAAAAGCTGATCCATCAAATGATGGATTTGA
63 CTCATTATGAACT-TTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGA
56628 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* *
56693 A-TATGAACTTTCTCTGGCAAAGCTAATCCATCAAGTGATGGATTTGA
66 ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGA
* *
56740 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCATATGAGTTCTTCTT
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * * **
56805 ATTATGAACTTTCTCTGGCAAAGCTGATCCATCAAATGATGAATTCAA
66 ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGA
* *
56853 GCAAAAGGTTGAACAAAATCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTT
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* *
56918 ATTATGAACTTTCTCTGGCAAAGCTAATCCATCAAGTGATGGATTTGA
66 ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGA
56966 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
57031 ATTATGAACT
66 ATTATGAACT
57041 CTAACTGACA
Statistics
Matches: 581, Mismatches: 52, Indels: 17
0.89 0.08 0.03
Matches are distributed among these distances:
111 2 0.00
112 141 0.24
113 331 0.57
114 2 0.00
115 2 0.00
116 103 0.18
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (113 bp):
GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGA
Found at i:56794 original size:24 final size:23
Alignment explanation
Indices: 56759--56804 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
56749 TGAACAAATT
*
56759 CTTCTCATTATGAATTTCTTCTTC
1 CTTCTCATTATG-AGTTCTTCTTC
56783 CTTCTTCA-TATGAGTTCTTCTT
1 CTTC-TCATTATGAGTTCTTCTT
56805 ATTATGAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 9 0.45
24 8 0.40
25 3 0.15
ACGTcount: A:0.15, C:0.24, G:0.07, T:0.54
Consensus pattern (23 bp):
CTTCTCATTATGAGTTCTTCTTC
Found at i:57536 original size:95 final size:95
Alignment explanation
Indices: 57373--57572 Score: 400
Period size: 95 Copynumber: 2.1 Consensus size: 95
57363 TGCAACATGT
57373 TGATTCTGATAACAACTCATCTGATTATGAAGTGACCTTTCAAGATGATTTCACAGATATCGATA
1 TGATTCTGATAACAACTCATCTGATTATGAAGTGACCTTTCAAGATGATTTCACAGATATCGATA
57438 GTTCTTTTAATACCGAGAAATCTTGAATTC
66 GTTCTTTTAATACCGAGAAATCTTGAATTC
57468 TGATTCTGATAACAACTCATCTGATTATGAAGTGACCTTTCAAGATGATTTCACAGATATCGATA
1 TGATTCTGATAACAACTCATCTGATTATGAAGTGACCTTTCAAGATGATTTCACAGATATCGATA
57533 GTTCTTTTAATACCGAGAAATCTTGAATTC
66 GTTCTTTTAATACCGAGAAATCTTGAATTC
57563 TGATTCTGAT
1 TGATTCTGAT
57573 GAAGAGAATA
Statistics
Matches: 105, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 105 1.00
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (95 bp):
TGATTCTGATAACAACTCATCTGATTATGAAGTGACCTTTCAAGATGATTTCACAGATATCGATA
GTTCTTTTAATACCGAGAAATCTTGAATTC
Found at i:58127 original size:83 final size:83
Alignment explanation
Indices: 57988--58375 Score: 758
Period size: 83 Copynumber: 4.7 Consensus size: 83
57978 CTATGGTTCA
*
57988 TACCAAACCAGATCAGATAACTCAAAGAACACTTTCAGAAGATGCTATGAGCACATTCCTCTTCC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCC
58053 AAATTCAATGATTGATTT
66 AAATTCAATGATTGATTT
58071 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCC
58136 AAATTCAATGATTGATTT
66 AAATTCAATGATTGATTT
58154 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCC
58219 AAATTCAATGATTGATTT
66 AAATTCAATGATTGATTT
58237 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCC
58302 AAATTCAATGATTGATTT
66 AAATTCAATGATTGATTT
*
58320 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCACAT
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACAT
58376 GGCATTTGTT
Statistics
Matches: 303, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 303 1.00
ACGTcount: A:0.38, C:0.24, G:0.12, T:0.26
Consensus pattern (83 bp):
TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCC
AAATTCAATGATTGATTT
Found at i:58215 original size:166 final size:166
Alignment explanation
Indices: 57899--58375 Score: 801
Period size: 166 Copynumber: 2.8 Consensus size: 166
57889 GGTTTTATAT
* * * *
57899 CAAACCAAATCAGAGAACTCAAAGAATACTTCCAGAAGATGCTATTAGCACATTCCTCTTCCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCCAAA
* * *
57964 TTCAATAACTGGTTCTATGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTTCAGAAG
66 TTC---AA-TGATT-GAT--TT--TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
58029 ATGCTATGAGCACATTCCTCTTCCAAATTCAATGATTGATTTTAC
122 ATGCTATGAGCACATTCCTCTTCCAAATTCAATGATTGATTTTAC
58074 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCCAAA
58139 TTCAATGATTGATTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGA
66 TTCAATGATTGATTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGA
58204 GCACATTCCTCTTCCAAATTCAATGATTGATTTTAC
131 GCACATTCCTCTTCCAAATTCAATGATTGATTTTAC
58240 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCCAAA
*
58305 TTCAATGATTGATTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTA
66 TTCAATGATTGATTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGA
58370 GCACAT
131 GCACAT
58376 GGCATTTGTT
Statistics
Matches: 294, Mismatches: 8, Indels: 9
0.95 0.03 0.03
Matches are distributed among these distances:
166 220 0.75
168 2 0.01
170 2 0.01
171 4 0.01
172 2 0.01
175 64 0.22
ACGTcount: A:0.38, C:0.24, G:0.12, T:0.26
Consensus pattern (166 bp):
CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCCAAA
TTCAATGATTGATTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGA
GCACATTCCTCTTCCAAATTCAATGATTGATTTTAC
Found at i:58346 original size:249 final size:254
Alignment explanation
Indices: 57899--58375 Score: 811
Period size: 249 Copynumber: 1.9 Consensus size: 254
57889 GGTTTTATAT
* *
57899 CAAACCAAATCAGAGAACTCAAAGAATACTTCCAGAAGATGCTATTAGCACATTCCTCTTCCAAA
1 CAAACCAAATCAGAGAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCCAAA
* * *
57964 TTCAATAACTGGTTCTATGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTTCAGAAG
66 TTC-A-AACTGATTCGAT-GTT-ATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
58029 ATGCTATGAGCACATTCCTCTTCCAAATTCAATGATTGATTTTACCAAACCAGATCAGATAACTC
127 ATGCTATGAGCACATTCCTCTTCCAAATTCAATGATTGATTTTACCAAACCAGATCAGATAACTC
58094 AAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCCAAATTCAATGATTGATTTTAC
192 AAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCCAAATTCAATGATTGATTTTAC
* *
58157 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCCAAA
1 CAAACCAAATCAGAGAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCCAAA
58222 TTC-AA-TGATT-GAT-TT-TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGC
66 TTCAAACTGATTCGATGTTATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGC
58282 TATGAGCACATTCCTCTTCCAAATTCAATGATTGATTTTACCAAACCAGATCAGATAACTCAAAG
131 TATGAGCACATTCCTCTTCCAAATTCAATGATTGATTTTACCAAACCAGATCAGATAACTCAAAG
*
58347 AACACTTCCAGAAGATGCTATTAGCACAT
196 AACACTTCCAGAAGATGCTATGAGCACAT
58376 GGCATTTGTT
Statistics
Matches: 211, Mismatches: 8, Indels: 9
0.93 0.04 0.04
Matches are distributed among these distances:
249 137 0.65
251 2 0.01
253 2 0.01
254 4 0.02
255 2 0.01
258 64 0.30
ACGTcount: A:0.38, C:0.24, G:0.12, T:0.26
Consensus pattern (254 bp):
CAAACCAAATCAGAGAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCCAAA
TTCAAACTGATTCGATGTTATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGC
TATGAGCACATTCCTCTTCCAAATTCAATGATTGATTTTACCAAACCAGATCAGATAACTCAAAG
AACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCCAAATTCAATGATTGATTTTAC
Found at i:66960 original size:15 final size:15
Alignment explanation
Indices: 66937--66968 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
66927 TGAAATGAAT
66937 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
66952 AATGCATGTATGCAA
1 AATGAATGTATGCAA
66967 AA
1 AA
66969 AGGTATTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.19, T:0.25
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:70248 original size:20 final size:22
Alignment explanation
Indices: 70208--70251 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
70198 ATGAAATATT
70208 AATAATATATATAATACTATAA
1 AATAATATATATAATACTATAA
*
70230 AATAATATGTAT-ATA-TATAA
1 AATAATATATATAATACTATAA
70250 AA
1 AA
70252 AGAATTATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 7 0.33
21 3 0.14
22 11 0.52
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.36
Consensus pattern (22 bp):
AATAATATATATAATACTATAA
Done.