Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007943.1 Hibiscus syriacus cultivar Beakdansim tig00110365_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: 1187827
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 6
Found at i:6807 original size:22 final size:22
Alignment explanation
Indices: 6765--6808 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
6755 ATAAAGAACC
*
6765 AAAATAAACTTAAATATACCAT
1 AAAATAAACTTAAACATACCAT
*
6787 AAAATAAAGTTTAAACA-ACCAT
1 AAAATAAA-CTTAAACATACCAT
6809 TCAACCAACC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.59, C:0.14, G:0.02, T:0.25
Consensus pattern (22 bp):
AAAATAAACTTAAACATACCAT
Found at i:14739 original size:2 final size:2
Alignment explanation
Indices: 14726--14762 Score: 65
Period size: 2 Copynumber: 18.0 Consensus size: 2
14716 TATCCTCATC
14726 AT AT AGT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14763 GCAGATGAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 32 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:16315 original size:15 final size:17
Alignment explanation
Indices: 16285--16316 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
16275 AGATTTGAAA
16285 AAGTTAATTCATATTTT
1 AAGTTAATTCATATTTT
16302 AAGTT-ATT-ATATTTT
1 AAGTTAATTCATATTTT
16317 GGATCATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.56
Consensus pattern (17 bp):
AAGTTAATTCATATTTT
Found at i:17201 original size:31 final size:31
Alignment explanation
Indices: 17166--17246 Score: 144
Period size: 31 Copynumber: 2.6 Consensus size: 31
17156 ACGAATTAAC
*
17166 ATGAAAGAACACGAACAAGCTAAATTTCTTA
1 ATGAACGAACACGAACAAGCTAAATTTCTTA
17197 ATGAACGAACACGAACAAGCTAAATTTCTTA
1 ATGAACGAACACGAACAAGCTAAATTTCTTA
*
17228 ATGAACGAACATGAACAAG
1 ATGAACGAACACGAACAAG
17247 AATTTTTGTT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 48 1.00
ACGTcount: A:0.48, C:0.17, G:0.15, T:0.20
Consensus pattern (31 bp):
ATGAACGAACACGAACAAGCTAAATTTCTTA
Found at i:17435 original size:22 final size:22
Alignment explanation
Indices: 17388--17453 Score: 55
Period size: 22 Copynumber: 3.0 Consensus size: 22
17378 AAGTCCAGGT
* * *
17388 AATTTAAGTCTAAATT-ATATTC
1 AATTTAAGTATAATTTAAT-TTA
17410 AATTTAAGTATAATTTAATTTA
1 AATTTAAGTATAATTTAATTTA
* *
17432 AA-TTAAATATGATTTCAATTTA
1 AATTTAAGTATAATTT-AATTTA
17454 GTTTGAGTCT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 11 0.30
22 24 0.65
23 2 0.05
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.47
Consensus pattern (22 bp):
AATTTAAGTATAATTTAATTTA
Found at i:18655 original size:64 final size:64
Alignment explanation
Indices: 18523--18674 Score: 166
Period size: 64 Copynumber: 2.4 Consensus size: 64
18513 CAAGGTGTAT
* * * *
18523 CGATGCACATGAAGTGCATCGATGCACTCCTTTAAAATAAAAACATCGAATGTCATCAGTGAAT
1 CGATGCACAAGTAGTGCATCGATGCACTCCTTTAAAATAAAAACATCGAATGACATCAGTGAAC
* * * * *
18587 CGATGCACAAGTAGTGCATCGATGCACCTGC-TTAAAATACAAACATCGAATGAGATTTA-TGCA
1 CGATGCACAAGTAGTGCATCGATGCA-CTCCTTTAAAATAAAAACATCGAATGACA-TCAGTGAA
18650 C
64 C
*
18651 CGATGCA-TAGATAGTGCATCGATG
1 CGATGCACAAG-TAGTGCATCGATG
18675 TACCCGTCAA
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
63 2 0.03
64 68 0.91
65 5 0.07
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (64 bp):
CGATGCACAAGTAGTGCATCGATGCACTCCTTTAAAATAAAAACATCGAATGACATCAGTGAAC
Found at i:20258 original size:23 final size:23
Alignment explanation
Indices: 20232--20276 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
20222 CACCACAGCT
*
20232 CGTATAAATGCACCGAAGTGCCC
1 CGTAGAAATGCACCGAAGTGCCC
* * *
20255 CGTAGAATTGCACTGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
20277 ATATAATGAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.22
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCC
Found at i:20525 original size:149 final size:149
Alignment explanation
Indices: 20255--20558 Score: 563
Period size: 149 Copynumber: 2.0 Consensus size: 149
20245 CGAAGTGCCC
* * *
20255 CGTAGAATTGCACTGTAGTGCCATATAATGATGTCCATAAGGACCAAATAGAATTATTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCAAATAGAATTATGTAAGAAT
20320 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACAGGTTCCAAAGAATATA
66 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACAGGTTCCAAAGAATATA
20385 CATATGTCCCTAAGAACCG
131 CATATGTCCCTAAGAACCG
* *
20404 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTGTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCAAATAGAATTATGTAAGAAT
20469 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACAGGTTCCAAAGAATATA
66 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACAGGTTCCAAAGAATATA
20534 CATATGTCCCTAAGAACCG
131 CATATGTCCCTAAGAACCG
20553 CGTAGA
1 CGTAGA
20559 CCCTCGACTC
Statistics
Matches: 150, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
149 150 1.00
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (149 bp):
CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCAAATAGAATTATGTAAGAAT
CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACAGGTTCCAAAGAATATA
CATATGTCCCTAAGAACCG
Found at i:21182 original size:2 final size:2
Alignment explanation
Indices: 21175--21232 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
21165 ATTTCATTTC
21175 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21217 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
21233 CCTCAAGATT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22098 original size:20 final size:20
Alignment explanation
Indices: 22075--22117 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
22065 TCTTGTTCGT
* *
22075 TTGAAGGGGTATCGGTTCCC
1 TTGAAGGGGTACCGATTCCC
*
22095 TTGAATGGGTACCGATTCCC
1 TTGAAGGGGTACCGATTCCC
22115 TTG
1 TTG
22118 CCCAGAAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.16, C:0.21, G:0.30, T:0.33
Consensus pattern (20 bp):
TTGAAGGGGTACCGATTCCC
Found at i:25483 original size:145 final size:144
Alignment explanation
Indices: 25218--25513 Score: 499
Period size: 145 Copynumber: 2.0 Consensus size: 144
25208 CCGAAGTGCC
* *
25218 CGTAGAATTGCCCGTAGTGCCATATAAGATGTCCATAAGGACCACATAGAATTATTTAAGAATCA
1 CGTAGAATTGCCCGTAGTGCCATATAAAATGTCCATAAGGACCACATAGAATTATGTAAGAATCA
25283 TATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACAGGTTCCAAAGAATATACA
66 -ATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACAGGTTCCAAAG-A-ATACA
25348 TATGTCCCTAAGAACCG
128 TATGTCCCTAAGAACCG
*
25365 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCAT-AGGA-CACATAGAATTCTGTAAGAAT
1 CGTAGAATTGC-CCGTAGTGCCATATAA-AATGTCCATAAGGACCACATAGAATTATGTAAGAAT
25428 C-ATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACAGGTTCCAAAGAATACAT
64 CAATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACAGGTTCCAAAGAATACAT
25492 ATGTCCCTAAGAACCG
129 ATGTCCCTAAGAACCG
25508 CGTAGA
1 CGTAGA
25514 CCTCGACTCT
Statistics
Matches: 144, Mismatches: 3, Indels: 8
0.93 0.02 0.05
Matches are distributed among these distances:
143 28 0.19
144 1 0.01
145 56 0.39
147 31 0.22
148 20 0.14
149 8 0.06
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (144 bp):
CGTAGAATTGCCCGTAGTGCCATATAAAATGTCCATAAGGACCACATAGAATTATGTAAGAATCA
ATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACAGGTTCCAAAGAATACATAT
GTCCCTAAGAACCG
Found at i:25960 original size:21 final size:22
Alignment explanation
Indices: 25920--25962 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
25910 ATTTCTTATA
* *
25920 CCATCACATAATTATTTAACAT
1 CCATAACATAATTATGTAACAT
25942 CCATAACAT-ATTATGTAACAT
1 CCATAACATAATTATGTAACAT
25963 ATTAATAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.42, C:0.21, G:0.02, T:0.35
Consensus pattern (22 bp):
CCATAACATAATTATGTAACAT
Found at i:26139 original size:2 final size:2
Alignment explanation
Indices: 26127--26166 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
26117 ATTTCATTTC
*
26127 AT AT CT AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
26167 GATCCTCAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27050 original size:21 final size:20
Alignment explanation
Indices: 27007--27046 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
26997 TCTTGTTCGT
* *
27007 TTGAAGGGGTATCGGTTCCC
1 TTGAAGGGGTACCGATTCCC
*
27027 TTGAATGGGTACCGATTCCC
1 TTGAAGGGGTACCGATTCCC
27047 CTTGCCCAGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.17, C:0.23, G:0.30, T:0.30
Consensus pattern (20 bp):
TTGAAGGGGTACCGATTCCC
Found at i:30153 original size:23 final size:23
Alignment explanation
Indices: 30127--30171 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
30117 CACCACAGCT
*
30127 CGTATAAATGCACCGAAGTGCCC
1 CGTAGAAATGCACCGAAGTGCCC
* *
30150 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
30172 ATATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCC
Found at i:30419 original size:148 final size:149
Alignment explanation
Indices: 30150--30452 Score: 572
Period size: 148 Copynumber: 2.0 Consensus size: 149
30140 CGAAGTGCCC
* *
30150 CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTATTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTATGTAAGAAT
30215 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACAGGTTCCAAAGAATATA
66 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACAGGTTCCAAAGAATATA
30280 CATATGTCCCTAAGAACCG
131 CATATGTCCCTAAGAACCG
*
30299 CGTAGAATTGCACCGTAGTGCCATATAATAATG-CCATAAGGACCACATAGAATTCTGTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTATGTAAGAAT
30363 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACAGGTTCCAAAGAATATA
66 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACAGGTTCCAAAGAATATA
30428 CATATGTCCCTAAGAACCG
131 CATATGTCCCTAAGAACCG
30447 CGTAGA
1 CGTAGA
30453 CCCTCGACTC
Statistics
Matches: 151, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
148 119 0.79
149 32 0.21
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (149 bp):
CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTATGTAAGAAT
CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACAGGTTCCAAAGAATATA
CATATGTCCCTAAGAACCG
Found at i:31092 original size:2 final size:2
Alignment explanation
Indices: 31080--31115 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
31070 ATTTCATTTC
*
31080 AT AT CT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
31116 CCTCAAGATT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:31990 original size:21 final size:21
Alignment explanation
Indices: 31966--32010 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
31956 TCTTGTTCGT
* *
31966 TTGAATGGGTATCGGTTCCCC
1 TTGAATGGGTACCGATTCCCC
31987 TTGAATGGGTACCGATTCCCC
1 TTGAATGGGTACCGATTCCCC
32008 TTG
1 TTG
32011 CCCAGAAATC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.16, C:0.24, G:0.27, T:0.33
Consensus pattern (21 bp):
TTGAATGGGTACCGATTCCCC
Found at i:36153 original size:64 final size:64
Alignment explanation
Indices: 36081--36201 Score: 190
Period size: 64 Copynumber: 1.9 Consensus size: 64
36071 ATTGATCAAG
*
36081 GTGTATCGATGCACAAGAAGTGCGTCGATGCA-CTCCTTTAAAATAAAAACATCGAATTCCATCA
1 GTGTATCGATGCACAAGAAGTGCATCGATGCACCTCC-TTAAAATAAAAACATCGAATTCCATCA
* * *
36145 GTGTATCGATGCACAAGTAGTGCATCGATGCACCTGCTTAAAATACAAACATCGAAT
1 GTGTATCGATGCACAAGAAGTGCATCGATGCACCTCCTTAAAATAAAAACATCGAAT
36202 GGGATTTATG
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
64 49 0.94
65 3 0.06
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (64 bp):
GTGTATCGATGCACAAGAAGTGCATCGATGCACCTCCTTAAAATAAAAACATCGAATTCCATCA
Found at i:36219 original size:64 final size:65
Alignment explanation
Indices: 36087--36242 Score: 167
Period size: 64 Copynumber: 2.4 Consensus size: 65
36077 CAAGGTGTAT
* * * * *
36087 CGATGCACAAGAAGTGCGTCGATGCA-CTCCTTTAAAATAAAAACATCGAATTCCATCAGTGTAT
1 CGATGCACAAGTAGTGCATCGATGCACCTCCTTTAAAATAAAAACATCGAATGCCATCAGTGCAC
* * ** *
36151 CGATGCACAAGTAGTGCATCGATGCACCTGC-TTAAAATACAAACATCGAATGGGATTTA-TGCA
1 CGATGCACAAGTAGTGCATCGATGCACCTCCTTTAAAATAAAAACATCGAATGCCA-TCAGTGCA
36214 C
65 C
*
36215 CGATGCA-TAGATAGTGCATCGATGCACC
1 CGATGCACAAG-TAGTGCATCGATGCACC
36243 CGTCAAGGGA
Statistics
Matches: 78, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
63 2 0.03
64 71 0.91
65 5 0.06
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (65 bp):
CGATGCACAAGTAGTGCATCGATGCACCTCCTTTAAAATAAAAACATCGAATGCCATCAGTGCAC
Found at i:44078 original size:21 final size:21
Alignment explanation
Indices: 44053--44100 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
44043 CCTAATATTG
44053 CAATGTCAAAATTAGGTGCAA
1 CAATGTCAAAATTAGGTGCAA
44074 CAATGTCAAAATTAGGTGCAA
1 CAATGTCAAAATTAGGTGCAA
*
44095 TAATGT
1 CAATGT
44101 TTGAAAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.42, C:0.12, G:0.19, T:0.27
Consensus pattern (21 bp):
CAATGTCAAAATTAGGTGCAA
Found at i:46558 original size:14 final size:14
Alignment explanation
Indices: 46539--46566 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
46529 CGATTATATA
46539 TTCATTTATGTTCG
1 TTCATTTATGTTCG
46553 TTCATTTATGTTCG
1 TTCATTTATGTTCG
46567 AACAGAGGGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.14, G:0.14, T:0.57
Consensus pattern (14 bp):
TTCATTTATGTTCG
Found at i:46984 original size:16 final size:16
Alignment explanation
Indices: 46959--46989 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
46949 AAAAAAAATT
*
46959 TGTTCGTTTATGTTCA
1 TGTTCATTTATGTTCA
46975 TGTTCATTTATGTTC
1 TGTTCATTTATGTTC
46990 GTTTATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.13, C:0.13, G:0.16, T:0.58
Consensus pattern (16 bp):
TGTTCATTTATGTTCA
Found at i:60319 original size:126 final size:123
Alignment explanation
Indices: 60124--60454 Score: 386
Period size: 126 Copynumber: 2.7 Consensus size: 123
60114 TTTAGTGAAG
* * * *
60124 TTTTT-TACAAACACCGC-AAATACTATAGTTTAGTGTGTA-TTTG--TACAAACACCACTAAAG
1 TTTTTATATAAACGCCGCTAAATACTATACTTTAGTG-G-AGTTTGTATACAAACACCGCTAAAG
* * * *
60184 ACTCTTACTTTAGTGGCATTTTAAGCACAAA-AGCTGCTATATACTCATACTTTAGTGGCG
64 ACTCGTACTTTAGTGGCATTTTAAGCACAAACA-CCGCTAAATACTCATACTTTAGTGGCA
* * * *
60244 TTTTTATATAAATGCCATCGGTAAATATTATACTTTAGTGGAGTTTGTATACAAACACCGCCAAA
1 TTTTTATATAAACG-C--CGCTAAATACTATACTTTAGTGGAGTTTGTATACAAACACCGCTAAA
* * *
60309 GACTCGTACTTTAATTGCGTTTTAAGCACAAACACCGCTAAATACTCATACTTTAGTGGCA
63 GACTCGTACTTTAGTGGCATTTTAAGCACAAACACCGCTAAATACTCATACTTTAGTGGCA
* * * *
60370 TTTTTATATAAACGCCGCTAAATACTATACTTTAGTGGTGTTTTTATACAAATACCGCTAAATAC
1 TTTTTATATAAACGCCGCTAAATACTATACTTTAGTGGAGTTTGTATACAAACACCGCTAAAGAC
*
60435 TCGTACTTTAGTGGCCTTTT
66 TCGTACTTTAGTGGCATTTT
60455 TTACAAACAT
Statistics
Matches: 176, Mismatches: 26, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
120 5 0.03
121 5 0.03
122 1 0.01
123 61 0.35
124 7 0.04
125 17 0.10
126 79 0.45
127 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (123 bp):
TTTTTATATAAACGCCGCTAAATACTATACTTTAGTGGAGTTTGTATACAAACACCGCTAAAGAC
TCGTACTTTAGTGGCATTTTAAGCACAAACACCGCTAAATACTCATACTTTAGTGGCA
Found at i:60407 original size:40 final size:41
Alignment explanation
Indices: 60124--60607 Score: 301
Period size: 40 Copynumber: 11.9 Consensus size: 41
60114 TTTAGTGAAG
* *
60124 TTTTT-TACAAACACCGC-AAATACT-ATAGTTTAGTGTG--
1 TTTTTATACAAACGCCGCTAAATACTCATACTTTAGTG-GCA
* * * * * *
60161 TATTTGTACAAACACCACTAAAGACTCTTACTTTAGTGGCA
1 TTTTTATACAAACGCCGCTAAATACTCATACTTTAGTGGCA
* * * * * *
60202 TTTTAAGCACAAAAGCTGCTATATACTCATACTTTAGTGGCG
1 TTTTTA-TACAAACGCCGCTAAATACTCATACTTTAGTGGCA
* * * *
60244 TTTTTATATAAATGCCATCGGTAAATA-TTATACTTTAGTGG-A
1 TTTTTATACAAACG-C--CGCTAAATACTCATACTTTAGTGGCA
* * * * * * * *
60286 GTTTGTATACAAACACCGCCAAAGACTCGTACTTTAATTGCG
1 -TTTTTATACAAACGCCGCTAAATACTCATACTTTAGTGGCA
* * *
60328 TTTTAAGCACAAACACCGCTAAATACTCATACTTTAGTGGCA
1 TTTTTA-TACAAACGCCGCTAAATACTCATACTTTAGTGGCA
* **
60370 TTTTTATATAAACGCCGCTAAATACT-ATACTTTAGTGGTG
1 TTTTTATACAAACGCCGCTAAATACTCATACTTTAGTGGCA
** * *
60410 TTTTTATACAAATACCGCTAAATACTCGTACTTTAGTGGCC
1 TTTTTATACAAACGCCGCTAAATACTCATACTTTAGTGGCA
*** ** * *
60451 TTTTT-TACAAACATTGCTAAAGGCTAATACATTAGTGGC-
1 TTTTTATACAAACGCCGCTAAATACTCATACTTTAGTGGCA
* * **
60490 TTTTTAAGCACAAACGTCTTTAAATACT--TACTTTAGTGGCA
1 TTTTT-A-TACAAACGCCGCTAAATACTCATACTTTAGTGGCA
* * * * *
60531 TTTTAATATAAATGTCGCTAAAAACT-ATACTTTAGTGGCA
1 TTTTTATACAAACGCCGCTAAATACTCATACTTTAGTGGCA
* * *
60571 TTTTTATATAAACGCTGCTAAATACTCGTACTTTAGT
1 TTTTTATACAAACGCCGCTAAATACTCATACTTTAGT
60608 TTTTACTATG
Statistics
Matches: 339, Mismatches: 88, Indels: 36
0.73 0.19 0.08
Matches are distributed among these distances:
37 4 0.01
38 11 0.03
39 26 0.08
40 122 0.36
41 68 0.20
42 79 0.23
43 23 0.07
44 6 0.02
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (41 bp):
TTTTTATACAAACGCCGCTAAATACTCATACTTTAGTGGCA
Found at i:60607 original size:121 final size:121
Alignment explanation
Indices: 60079--60607 Score: 326
Period size: 121 Copynumber: 4.3 Consensus size: 121
60069 ACGCTATAGA
* ** * * * *
60079 GGCATTTTTTAAGCAAACGCTGCTAAATA-TTGTAGTTTAGT-GAAGTTTTT-TACAAACACCGC
1 GGCATTTTTT-A-CAAACACTGCTAAATACTCATACTTTAGTGGCA-TTTTTACACAAACGCCGC
* * * * * * *
60141 -AAATACTATAGTTTAGTGTGTA-TTT-GTACAAACACCACTAAAGACTCTTACTTTAGT
63 TAAATACTATACTTTAGTG-GCATTTTAATACAAATACCGCTAAAAACTCATACTTTAGT
* * * * * * *
60198 GGCA-TTTTAAGCACAAAAGCTGCTATATACTCATACTTTAGTGGCGTTTTTATATAAATGCCAT
1 GGCATTTTTTA-CA-AACA-CTGCTAAATACTCATACTTTAGTGGCATTTTTACACAAACG-C--
* * * * * * *
60262 CGGTAAATATTATACTTTAGTGG-AGTTTGT-ATACAAACACCGCCAAAGACTCGTACTTTAAT
60 CGCTAAATACTATACTTTAGTGGCA-TTT-TAATACAAATACCGCTAAAAACTCATACTTTAGT
* * ** * * *
60324 TGCGTTTTAAGCACAAACACCGCTAAATACTCATACTTTAGTGGCATTTTTATATAAACGCCGCT
1 GGCATTTT--TTACAAACACTGCTAAATACTCATACTTTAGTGGCATTTTTACACAAACGCCGCT
** * * *
60389 AAATACTATACTTTAGTGGTGTTTTTATACAAATACCGCTAAATACTCGTACTTTAGT
64 AAATACTATACTTTAGTGGCATTTTAATACAAATACCGCTAAAAACTCATACTTTAGT
* * ** * * * **
60447 GGCCTTTTTTACAAACATTGCTAAAGGCTAATACATTAGTGGC-TTTTTAAGCACAAACGTCTTT
1 GGCATTTTTTACAAACACTGCTAAATACTCATACTTTAGTGGCATTTTT-A-CACAAACGCCGCT
* **
60511 AAATACT-TACTTTAGTGGCATTTTAATATAAATGTCGCTAAAAACT-ATACTTTAGT
64 AAATACTATACTTTAGTGGCATTTTAATACAAATACCGCTAAAAACTCATACTTTAGT
* * *
60567 GGCATTTTTATATAAACGCTGCTAAATACTCGTACTTTAGT
1 GGCATTTTT-TACAAACACTGCTAAATACTCATACTTTAGT
60608 TTTTACTATG
Statistics
Matches: 322, Mismatches: 68, Indels: 38
0.75 0.16 0.09
Matches are distributed among these distances:
117 4 0.01
118 6 0.02
119 13 0.04
120 36 0.11
121 89 0.28
122 17 0.05
123 59 0.18
124 3 0.01
125 19 0.06
126 67 0.21
127 6 0.02
128 2 0.01
129 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.36
Consensus pattern (121 bp):
GGCATTTTTTACAAACACTGCTAAATACTCATACTTTAGTGGCATTTTTACACAAACGCCGCTAA
ATACTATACTTTAGTGGCATTTTAATACAAATACCGCTAAAAACTCATACTTTAGT
Found at i:63507 original size:21 final size:21
Alignment explanation
Indices: 63477--63535 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
63467 TGATTTATTA
63477 TTATGGATTTCAAGTTTCTTG
1 TTATGGATTTCAAGTTTCTTG
* * *
63498 TTATGTATTTCAAATTTGTTG
1 TTATGGATTTCAAGTTTCTTG
*
63519 TTATGGATGTCAAGTTT
1 TTATGGATTTCAAGTTT
63536 ATTGGATAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.22, C:0.07, G:0.19, T:0.53
Consensus pattern (21 bp):
TTATGGATTTCAAGTTTCTTG
Found at i:63942 original size:42 final size:42
Alignment explanation
Indices: 63895--64006 Score: 156
Period size: 42 Copynumber: 2.7 Consensus size: 42
63885 TAAACGCCGT
63895 TAAATATCATAACCTTTAGCGGCGTTTGTAAAAAAATG-ACGC
1 TAAATATCATAACCTTTAGCGGCGTTTGTAAAAAAATGCA-GC
* * *
63937 TAAATATCATTACCTTTAGTGGCATTTGTAAAAAAATGCAGC
1 TAAATATCATAACCTTTAGCGGCGTTTGTAAAAAAATGCAGC
* *
63979 TAAA-AACATAACCTTTAGCGGTGTTTGT
1 TAAATATCATAACCTTTAGCGGCGTTTGT
64007 GAACGACAAA
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
41 19 0.31
42 41 0.67
43 1 0.02
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.32
Consensus pattern (42 bp):
TAAATATCATAACCTTTAGCGGCGTTTGTAAAAAAATGCAGC
Found at i:64972 original size:21 final size:21
Alignment explanation
Indices: 64939--64997 Score: 91
Period size: 21 Copynumber: 2.8 Consensus size: 21
64929 GTTATCCAAT
* *
64939 AAACATGACATCCATAACAAC
1 AAACTTGAAATCCATAACAAC
64960 AAACTTGAAATCCATAACAAC
1 AAACTTGAAATCCATAACAAC
*
64981 CAACTTGAAATCCATAA
1 AAACTTGAAATCCATAA
64998 TAATAAATCA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.51, C:0.25, G:0.05, T:0.19
Consensus pattern (21 bp):
AAACTTGAAATCCATAACAAC
Found at i:72838 original size:6 final size:6
Alignment explanation
Indices: 72827--72853 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
72817 CAAATCTTCT
72827 AAAGAA AAAGAA AAAGAA AAAGAA AAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAA
72854 AAATAGAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:73117 original size:21 final size:21
Alignment explanation
Indices: 73093--73146 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
73083 AGGTCATCTG
* *
73093 TAAGTCTTCCAAACAAGATTT
1 TAAGTCATCCAAACAAGATGT
73114 TAAGTCATCCAAACAAGATGT
1 TAAGTCATCCAAACAAGATGT
73135 TAAGTCATCCAA
1 TAAGTCATCCAA
73147 GCCATTTATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.28
Consensus pattern (21 bp):
TAAGTCATCCAAACAAGATGT
Found at i:73487 original size:19 final size:19
Alignment explanation
Indices: 73461--73512 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
73451 GAAATGAAGG
73461 AAAAAAAATAAAA-ACAAA
1 AAAAAAAATAAAATACAAA
*
73479 AAAATAAAATAAAATA-GAA
1 AAAA-AAAATAAAATACAAA
*
73498 AAAAAGAATAAAATA
1 AAAAAAAATAAAATA
73513 AATAAACCCT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 14 0.47
19 15 0.50
20 1 0.03
ACGTcount: A:0.83, C:0.02, G:0.04, T:0.12
Consensus pattern (19 bp):
AAAAAAAATAAAATACAAA
Found at i:73487 original size:23 final size:22
Alignment explanation
Indices: 73461--73518 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 22
73451 GAAATGAAGG
73461 AAAAAAAATAAAAACAAAAAAAT
1 AAAAAAAATAAAAA-AAAAAAAT
* *
73484 AAAATAAAATAGAAAAAAAGAAT
1 AAAA-AAAATAAAAAAAAAAAAT
*
73507 AAAATAAATAAA
1 AAAAAAAATAAA
73519 CCCTCAAATG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 6 0.20
23 15 0.50
24 9 0.30
ACGTcount: A:0.83, C:0.02, G:0.03, T:0.12
Consensus pattern (22 bp):
AAAAAAAATAAAAAAAAAAAAT
Found at i:75392 original size:18 final size:18
Alignment explanation
Indices: 75361--75410 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
75351 CATAGAATTT
*
75361 TCCCGTAGGACCACTACG
1 TCCCGAAGGACCACTACG
* * *
75379 TCTCGAATGACCACTAGG
1 TCCCGAAGGACCACTACG
75397 TCCCGAAGGACCAC
1 TCCCGAAGGACCAC
75411 ATAGAACACA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.26, C:0.36, G:0.22, T:0.16
Consensus pattern (18 bp):
TCCCGAAGGACCACTACG
Found at i:78481 original size:19 final size:19
Alignment explanation
Indices: 78457--78493 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
78447 GAAAATATTC
78457 AGAGTGCATCGATGCATGA
1 AGAGTGCATCGATGCATGA
*
78476 AGAGTGCATCGGTGCATG
1 AGAGTGCATCGATGCATG
78494 GAATGCATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.27, C:0.16, G:0.35, T:0.22
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGA
Found at i:78483 original size:65 final size:65
Alignment explanation
Indices: 78332--78509 Score: 216
Period size: 64 Copynumber: 2.8 Consensus size: 65
78322 GAACACTTGA
* ** *
78332 TGCATCGGTGCACCAAGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAAATAGCCTGG
1 TGCATCGATGCATGAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGG
*** * **
78396 TGCATCGATGCATGGCTTGTGCATCGATGCATCAAATGCATTCGATGTTTTG-AAAATATTCAGA
1 TGCATCGATGCATGAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAG-
78460 G
65 G
* * *
78461 TGCATCGATGCATGAAGAGTGCATCGGTGCATGGAATGCATTCGATGTT
1 TGCATCGATGCATGAAGTGTGCATCGATGCATGAAATGCATTCGATGTT
78510 CAATTAATTC
Statistics
Matches: 95, Mismatches: 17, Indels: 3
0.83 0.15 0.03
Matches are distributed among these distances:
64 48 0.51
65 47 0.49
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.29
Consensus pattern (65 bp):
TGCATCGATGCATGAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGG
Found at i:80604 original size:23 final size:23
Alignment explanation
Indices: 80536--80596 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
80526 CAATCTTATA
*
80536 TGGCACTACGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
* * *
80559 CGGTACTTCGGGGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
80582 TGGCACTTCGGTGCA
1 TGGCACTTCGGTGCA
80597 TTTATACGAG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.18, C:0.26, G:0.30, T:0.26
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTCTACG
Found at i:87355 original size:22 final size:23
Alignment explanation
Indices: 87306--87356 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
87296 ATATGGAATA
87306 CGGTGCAATTCTACACGACACTT
1 CGGTGCAATTCTACACGACACTT
* **
87329 TGGTGCAATTCTACGTG-CACTT
1 CGGTGCAATTCTACACGACACTT
87351 CGGTGC
1 CGGTGC
87357 TCTACGAGCT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 10 0.42
23 14 0.58
ACGTcount: A:0.20, C:0.27, G:0.24, T:0.29
Consensus pattern (23 bp):
CGGTGCAATTCTACACGACACTT
Found at i:91494 original size:24 final size:24
Alignment explanation
Indices: 91477--91564 Score: 115
Period size: 24 Copynumber: 3.7 Consensus size: 24
91467 ATCATAACAT
*
91477 AATCCAGGTCAAGTATCAGATCAA
1 AATCCAGGTCAAGTATCAGATCAG
91501 AATCCAGGTCAAGTATTCA-ATCAG
1 AATCCAGGTCAAGTA-TCAGATCAG
** *
91525 AATTTAGGTCAAGTATCCGATCAG
1 AATCCAGGTCAAGTATCAGATCAG
*
91549 AATCCAGGTCAGGTAT
1 AATCCAGGTCAAGTAT
91565 TATAATAGAA
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
23 2 0.04
24 50 0.91
25 3 0.05
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.25
Consensus pattern (24 bp):
AATCCAGGTCAAGTATCAGATCAG
Found at i:93845 original size:17 final size:18
Alignment explanation
Indices: 93823--93856 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
93813 AACTGTCAAC
93823 GGGTC-GGTCAACGGGTT
1 GGGTCGGGTCAACGGGTT
93840 GGGTCGGGTCAACGGGT
1 GGGTCGGGTCAACGGGT
93857 CAGGTCGAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.12, C:0.18, G:0.50, T:0.21
Consensus pattern (18 bp):
GGGTCGGGTCAACGGGTT
Found at i:93862 original size:18 final size:17
Alignment explanation
Indices: 93824--93883 Score: 59
Period size: 18 Copynumber: 3.5 Consensus size: 17
93814 ACTGTCAACG
*
93824 GGTC-GGTCAACGGGTTG
1 GGTCGGGTCAACGGG-TC
93841 GGTCGGGTCAACGGGTC
1 GGTCGGGTCAACGGGTC
* * *
93858 AGGTCGAGTAAATGGGTC
1 -GGTCGGGTCAACGGGTC
93876 GGTCGGGT
1 GGTCGGGT
93884 TGTAACCAGT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
17 12 0.33
18 24 0.67
ACGTcount: A:0.15, C:0.17, G:0.47, T:0.22
Consensus pattern (17 bp):
GGTCGGGTCAACGGGTC
Found at i:95976 original size:21 final size:20
Alignment explanation
Indices: 95952--95992 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 20
95942 ATCATAACAT
95952 AATCCAGGTCAAGTATATCAA
1 AATCCAGGTCAAGTAT-TCAA
95973 AATCCAGGTCAAGTATTCAA
1 AATCCAGGTCAAGTATTCAA
95993 TAAGAATACA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.41, C:0.20, G:0.15, T:0.24
Consensus pattern (20 bp):
AATCCAGGTCAAGTATTCAA
Found at i:99607 original size:10 final size:10
Alignment explanation
Indices: 99592--99667 Score: 57
Period size: 10 Copynumber: 7.3 Consensus size: 10
99582 CTTAATGTTT
99592 TAAGCTTATA
1 TAAGCTTATA
*
99602 TAAGCTT-TCCT
1 TAAGCTTAT--A
99613 TAAGCTTATA
1 TAAGCTTATA
*
99623 TAAGCTT-TCCT
1 TAAGCTTAT--A
99634 TAAGCTTATA
1 TAAGCTTATA
* *
99644 TAAGCTTTCTT
1 TAAGC-TTATA
99655 TAAGCTTATA
1 TAAGCTTATA
99665 TAA
1 TAA
99668 CACTCAAAGA
Statistics
Matches: 51, Mismatches: 8, Indels: 14
0.70 0.11 0.19
Matches are distributed among these distances:
9 2 0.04
10 25 0.49
11 22 0.43
12 2 0.04
ACGTcount: A:0.32, C:0.16, G:0.09, T:0.43
Consensus pattern (10 bp):
TAAGCTTATA
Found at i:99617 original size:21 final size:21
Alignment explanation
Indices: 99591--99667 Score: 145
Period size: 21 Copynumber: 3.7 Consensus size: 21
99581 TCTTAATGTT
99591 TTAAGCTTATATAAGCTTTCC
1 TTAAGCTTATATAAGCTTTCC
99612 TTAAGCTTATATAAGCTTTCC
1 TTAAGCTTATATAAGCTTTCC
*
99633 TTAAGCTTATATAAGCTTTCT
1 TTAAGCTTATATAAGCTTTCC
99654 TTAAGCTTATATAA
1 TTAAGCTTATATAA
99668 CACTCAAAGA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 55 1.00
ACGTcount: A:0.31, C:0.16, G:0.09, T:0.44
Consensus pattern (21 bp):
TTAAGCTTATATAAGCTTTCC
Found at i:100624 original size:13 final size:12
Alignment explanation
Indices: 100586--100625 Score: 62
Period size: 12 Copynumber: 3.2 Consensus size: 12
100576 TAGTTTGGTT
100586 GTTTGGTCTCAG
1 GTTTGGTCTCAG
100598 GTTTGGTCTCAG
1 GTTTGGTCTCAG
*
100610 GTTTAGGTCTTAG
1 GTTT-GGTCTCAG
100623 GTT
1 GTT
100626 GTAGATCGGG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
12 16 0.62
13 10 0.38
ACGTcount: A:0.10, C:0.12, G:0.33, T:0.45
Consensus pattern (12 bp):
GTTTGGTCTCAG
Found at i:100889 original size:29 final size:29
Alignment explanation
Indices: 100847--100935 Score: 178
Period size: 29 Copynumber: 3.1 Consensus size: 29
100837 ATACAGTGGT
100847 CTTGGAGGTCGCCATGGCATCCGGGCGAC
1 CTTGGAGGTCGCCATGGCATCCGGGCGAC
100876 CTTGGAGGTCGCCATGGCATCCGGGCGAC
1 CTTGGAGGTCGCCATGGCATCCGGGCGAC
100905 CTTGGAGGTCGCCATGGCATCCGGGCGAC
1 CTTGGAGGTCGCCATGGCATCCGGGCGAC
100934 CT
1 CT
100936 GTGTGTATTT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 60 1.00
ACGTcount: A:0.13, C:0.31, G:0.37, T:0.18
Consensus pattern (29 bp):
CTTGGAGGTCGCCATGGCATCCGGGCGAC
Found at i:100996 original size:17 final size:15
Alignment explanation
Indices: 100982--101058 Score: 95
Period size: 15 Copynumber: 5.1 Consensus size: 15
100972 AACATGGGAC
100982 GTGGGAATGCATGGGG
1 GTGGGAATGCAT-GGG
* *
100998 GAGGGGATGCATGGG
1 GTGGGAATGCATGGG
101013 ACGTGGGAATGCAT-GG
1 --GTGGGAATGCATGGG
101029 GT-GGAATGCATGGG
1 GTGGGAATGCATGGG
101043 GTGGGAATGCATGGG
1 GTGGGAATGCATGGG
101058 G
1 G
101059 AGGGGATGGT
Statistics
Matches: 53, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
13 9 0.17
14 6 0.11
15 16 0.30
16 12 0.23
17 10 0.19
ACGTcount: A:0.21, C:0.08, G:0.53, T:0.18
Consensus pattern (15 bp):
GTGGGAATGCATGGG
Found at i:101011 original size:33 final size:33
Alignment explanation
Indices: 100974--101084 Score: 128
Period size: 33 Copynumber: 3.5 Consensus size: 33
100964 ATGCAATCAA
100974 CATGGGACGTGGGAATGCATGGGGGAGGGGATG
1 CATGGGACGTGGGAATGCATGGGGGAGGGGATG
101007 CATGGGACGTGGGAATGCATGGGTGGA----ATG
1 CATGGGACGTGGGAATGCATGGG-GGAGGGGATG
101037 CATGGG--GTGGGAATGCAT-GGGGAGGGGATGGTG
1 CATGGGACGTGGGAATGCATGGGGGAGGGGA---TG
*
101070 CATTGGACGTGGGAA
1 CATGGGACGTGGGAA
101085 AACCTTCCTC
Statistics
Matches: 67, Mismatches: 1, Indels: 18
0.78 0.01 0.21
Matches are distributed among these distances:
26 3 0.04
27 2 0.03
28 12 0.18
30 10 0.15
33 30 0.45
34 3 0.04
35 7 0.10
ACGTcount: A:0.22, C:0.09, G:0.51, T:0.18
Consensus pattern (33 bp):
CATGGGACGTGGGAATGCATGGGGGAGGGGATG
Found at i:101623 original size:8 final size:8
Alignment explanation
Indices: 101606--101660 Score: 58
Period size: 8 Copynumber: 6.9 Consensus size: 8
101596 AACTAAAATC
*
101606 TAGTTAAT
1 TAGTTTAT
101614 TAGTTTAT
1 TAGTTTAT
*
101622 TAGTTTGT
1 TAGTTTAT
*
101630 TAGTTAAGT
1 TAGTTTA-T
*
101639 TA-TATAT
1 TAGTTTAT
101646 TAGTTTAT
1 TAGTTTAT
101654 TAGTTTA
1 TAGTTTA
101661 AGTTATTATT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
7 3 0.08
8 32 0.84
9 3 0.08
ACGTcount: A:0.29, C:0.00, G:0.15, T:0.56
Consensus pattern (8 bp):
TAGTTTAT
Found at i:101646 original size:24 final size:23
Alignment explanation
Indices: 101618--101671 Score: 81
Period size: 24 Copynumber: 2.3 Consensus size: 23
101608 GTTAATTAGT
*
101618 TTATTAGTTTGTTAGTTAAGTTA
1 TTATTAGTTTATTAGTTAAGTTA
101641 TATATTAGTTTATTAGTTTAAGTTA
1 T-TATTAGTTTATTAG-TTAAGTTA
101666 TTATTA
1 TTATTA
101672 TATTATATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 1 0.04
24 18 0.64
25 9 0.32
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.57
Consensus pattern (23 bp):
TTATTAGTTTATTAGTTAAGTTA
Found at i:102419 original size:20 final size:20
Alignment explanation
Indices: 102383--102426 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
102373 TATCATTATT
* *
102383 ATTAGTATAATTACTAAATG
1 ATTAGTATAAATACTAAATC
102403 ATTAGTATCAAAT-CTAAATC
1 ATTAGTAT-AAATACTAAATC
102423 ATTA
1 ATTA
102427 ATATTTAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.45, C:0.09, G:0.07, T:0.39
Consensus pattern (20 bp):
ATTAGTATAAATACTAAATC
Found at i:102499 original size:26 final size:25
Alignment explanation
Indices: 102470--102528 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
102460 AAATCATATT
*
102470 ATTATTAAATCATTAAATATCAAATC
1 ATTATTAAAT-AGTAAATATCAAATC
*
102496 ATTAGATT-AATAGTAATTATCAAATC
1 ATT--ATTAAATAGTAAATATCAAATC
102522 ATTATTA
1 ATTATTA
102529 GGTTTATTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
24 3 0.11
26 19 0.68
27 3 0.11
28 3 0.11
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.41
Consensus pattern (25 bp):
ATTATTAAATAGTAAATATCAAATC
Found at i:105349 original size:26 final size:26
Alignment explanation
Indices: 105320--105644 Score: 271
Period size: 26 Copynumber: 13.1 Consensus size: 26
105310 TTTGATGATT
105320 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
105346 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
*
105372 TAATAATGATTT-AGTAATAATC-TTA
1 TAGTAATGATTTGA-TAATAATCATTA
** *
105397 TAAAAATGA-TT--TAATAATGATT-
1 TAGTAATGATTTGATAATAATCATTA
* * * *
105419 TA--AAT-ATTTAATGATTTGATGA-T-
1 TAGTAATGATTTGAT-A-ATAATCATTA
105442 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
105468 TAGT-ATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
*
105493 TAATAATGATTT-AGTAATAATCATTA
1 TAGTAATGATTTGA-TAATAATCATTA
** *
105519 TAAAAATGA-TT--TAATAATGATT-
1 TAGTAATGATTTGATAATAATCATTA
* * * * *
105541 TA--AAT-TTTTAATGATTTGATGATT-
1 TAGTAATGATTTGAT-A-ATAATCATTA
105565 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
105591 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
*
105617 TAATAATGATTT-AGTAATAATCATTA
1 TAGTAATGATTTGA-TAATAATCATTA
105643 TA
1 TA
105645 AAAAAATGAT
Statistics
Matches: 254, Mismatches: 21, Indels: 48
0.79 0.07 0.15
Matches are distributed among these distances:
19 1 0.00
20 10 0.04
22 13 0.05
23 17 0.07
24 20 0.08
25 51 0.20
26 137 0.54
27 5 0.02
ACGTcount: A:0.43, C:0.03, G:0.10, T:0.44
Consensus pattern (26 bp):
TAGTAATGATTTGATAATAATCATTA
Found at i:105571 original size:19 final size:19
Alignment explanation
Indices: 105524--105579 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 19
105514 CATTATAAAA
105524 ATGATTTAATAATGATTT-
1 ATGATTTAATAATGATTTG
* *
105542 A-AATTT-TTAATGATTTG
1 ATGATTTAATAATGATTTG
*
105559 ATGATTTAGTAATGATTTG
1 ATGATTTAATAATGATTTG
105578 AT
1 AT
105580 AATAATCATT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
16 9 0.29
17 5 0.16
18 5 0.16
19 12 0.39
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (19 bp):
ATGATTTAATAATGATTTG
Found at i:105942 original size:17 final size:17
Alignment explanation
Indices: 105917--105949 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
105907 ACTAAATATT
*
105917 TAATTATTTGATACTAG
1 TAATGATTTGATACTAG
105934 TAATGATTTGATACTA
1 TAATGATTTGATACTA
105950 AAAATCATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.06, G:0.12, T:0.45
Consensus pattern (17 bp):
TAATGATTTGATACTAG
Found at i:105942 original size:25 final size:23
Alignment explanation
Indices: 105863--105942 Score: 67
Period size: 24 Copynumber: 3.3 Consensus size: 23
105853 GATTTATTGT
105863 TAATATTTAATTATTTGATAC--
1 TAATATTTAATTATTTGATACTA
* *
105884 TAATGATTTAAAATAGTTGATTTACTA
1 TAAT-ATTT-AATTATTTGA--TACTA
105911 -AATATTTAATTATTTGATACTA
1 TAATATTTAATTATTTGATACTA
105933 GTAATGATTT
1 -TAAT-ATTT
105943 GATACTAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
21 4 0.09
22 9 0.20
23 8 0.17
24 11 0.24
25 11 0.24
26 3 0.07
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.49
Consensus pattern (23 bp):
TAATATTTAATTATTTGATACTA
Found at i:108377 original size:43 final size:46
Alignment explanation
Indices: 108302--108389 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 46
108292 CAACAAACAA
*
108302 ATAACTTAACTATTTAACTAACACAAACTAATTAAATAATTTTTTAT
1 ATAACTTAACTATTTAACTAAAACAAACTAATT-AATAATTTTTTAT
*
108349 ATAAC-TAACTA-TTAAC-AAAAC-AACTAATTAATTATTTTTTA
1 ATAACTTAACTATTTAACTAAAACAAACTAATTAATAATTTTTTA
108390 ACTATATAAC
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
42 11 0.28
43 8 0.21
44 4 0.10
45 5 0.13
46 6 0.15
47 5 0.13
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (46 bp):
ATAACTTAACTATTTAACTAAAACAAACTAATTAATAATTTTTTAT
Found at i:108619 original size:21 final size:21
Alignment explanation
Indices: 108589--108641 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
108579 CCCTTTCTTC
* *
108589 TTCTTACTTTCCTTTCTCCCT
1 TTCTTTCTTTCATTTCTCCCT
108610 TTCTTTCTTTCATTTCTCCCT
1 TTCTTTCTTTCATTTCTCCCT
108631 TTCTTTCTTTC
1 TTCTTTCTTTC
108642 TCGGCTGCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.04, C:0.34, G:0.00, T:0.62
Consensus pattern (21 bp):
TTCTTTCTTTCATTTCTCCCT
Found at i:108632 original size:17 final size:16
Alignment explanation
Indices: 108612--108643 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
108602 TTCTCCCTTT
108612 CTTTCTTTCATTTCTCC
1 CTTTCTTTC-TTTCTCC
108629 CTTTCTTTCTTTCTC
1 CTTTCTTTCTTTCTC
108644 GGCTGCAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.03, C:0.34, G:0.00, T:0.62
Consensus pattern (16 bp):
CTTTCTTTCTTTCTCC
Found at i:108659 original size:25 final size:23
Alignment explanation
Indices: 108631--108690 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 23
108621 ATTTCTCCCT
*
108631 TTCTTTCTTTCTCGGCTGCAATCAC
1 TTCTCTCTTTCT--GCTGCAATCAC
* * *
108656 TTCTCCCTTTCTTCTGCAATCTC
1 TTCTCTCTTTCTGCTGCAATCAC
108679 TTCTCTCTTTCT
1 TTCTCTCTTTCT
108691 TTCTTTCTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
23 20 0.67
25 10 0.33
ACGTcount: A:0.08, C:0.35, G:0.07, T:0.50
Consensus pattern (23 bp):
TTCTCTCTTTCTGCTGCAATCAC
Found at i:108676 original size:23 final size:23
Alignment explanation
Indices: 108646--108691 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
108636 TCTTTCTCGG
108646 CTGCAATCACTTCTCCCTTTCTT
1 CTGCAATCACTTCTCCCTTTCTT
* *
108669 CTGCAATCTCTTCTCTCTTTCTT
1 CTGCAATCACTTCTCCCTTTCTT
108692 TCTTTCTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.11, C:0.37, G:0.04, T:0.48
Consensus pattern (23 bp):
CTGCAATCACTTCTCCCTTTCTT
Found at i:108920 original size:13 final size:13
Alignment explanation
Indices: 108902--108933 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
108892 GGTTGCATGT
108902 GAATGGATGATGG
1 GAATGGATGATGG
108915 GAATGGATGATGG
1 GAATGGATGATGG
108928 GAATGG
1 GAATGG
108934 CGCCAGGACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.47, T:0.22
Consensus pattern (13 bp):
GAATGGATGATGG
Found at i:108971 original size:29 final size:29
Alignment explanation
Indices: 108934--109042 Score: 157
Period size: 29 Copynumber: 3.8 Consensus size: 29
108924 ATGGGAATGG
*
108934 CGCCAGGACTACATGGCGACCTACAAGGT
1 CGCCAGGACCACATGGCGACCTACAAGGT
*
108963 CGCCGGGACCACATGGCGACCTACAAGGT
1 CGCCAGGACCACATGGCGACCTACAAGGT
*
108992 CGCCGGGACCACATGGCGACCTACAAGGT
1 CGCCAGGACCACATGGCGACCTACAAGGT
**
109021 CGCCTAGG-CTGCATGGCGACCT
1 CGCC-AGGACCACATGGCGACCT
109043 CTCTATTCCA
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
29 72 0.97
30 2 0.03
ACGTcount: A:0.23, C:0.34, G:0.30, T:0.13
Consensus pattern (29 bp):
CGCCAGGACCACATGGCGACCTACAAGGT
Found at i:109090 original size:17 final size:17
Alignment explanation
Indices: 109090--109149 Score: 50
Period size: 17 Copynumber: 3.6 Consensus size: 17
109080 CGCTCGTATG
109090 GCTCGCATGGGGAGAAC
1 GCTCGCATGGGGAGAAC
* *****
109107 GCTCGTATGGCTCCTAC
1 GCTCGCATGGGGAGAAC
109124 -CTCGCATGGGGAGAAC
1 GCTCGCATGGGGAGAAC
*
109140 GCTCGTATGG
1 GCTCGCATGG
109150 CTCGCATGGG
Statistics
Matches: 29, Mismatches: 13, Indels: 2
0.66 0.30 0.05
Matches are distributed among these distances:
16 10 0.34
17 19 0.66
ACGTcount: A:0.18, C:0.27, G:0.35, T:0.20
Consensus pattern (17 bp):
GCTCGCATGGGGAGAAC
Found at i:109101 original size:26 final size:26
Alignment explanation
Indices: 109065--109178 Score: 165
Period size: 26 Copynumber: 4.1 Consensus size: 26
109055 GCATACACAC
109065 CTCGCATGGGGAGAACGCTCGTATGG
1 CTCGCATGGGGAGAACGCTCGTATGG
109091 CTCGCATGGGGAGAACGCTCGTATGG
1 CTCGCATGGGGAGAACGCTCGTATGG
109117 CTCCTACCTCGCATGGGGAGAACGCTCGTATGG
1 -------CTCGCATGGGGAGAACGCTCGTATGG
109150 CTCGCATGGGGAGAACGCTCGTATGG
1 CTCGCATGGGGAGAACGCTCGTATGG
109176 CTC
1 CTC
109179 CTATGCATGG
Statistics
Matches: 81, Mismatches: 0, Indels: 14
0.85 0.00 0.15
Matches are distributed among these distances:
26 55 0.68
33 26 0.32
ACGTcount: A:0.18, C:0.26, G:0.35, T:0.20
Consensus pattern (26 bp):
CTCGCATGGGGAGAACGCTCGTATGG
Found at i:109133 original size:33 final size:32
Alignment explanation
Indices: 109065--109195 Score: 155
Period size: 26 Copynumber: 4.5 Consensus size: 32
109055 GCATACACAC
109065 CTCGCATGGGGAGAACGCTCGTATGG------
1 CTCGCATGGGGAGAACGCTCGTATGGCTCCTA
109091 CTCGCATGGGGAGAACGCTCGTATGGCTCCTA
1 CTCGCATGGGGAGAACGCTCGTATGGCTCCTA
109123 CCTCGCATGGGGAGAACGCTCGTATGG------
1 -CTCGCATGGGGAGAACGCTCGTATGGCTCCTA
109150 CTCGCATGGGGAGAACGCTCGTATGGCTCCTA
1 CTCGCATGGGGAGAACGCTCGTATGGCTCCTA
109182 -T-GCATGGGGAGAAC
1 CTCGCATGGGGAGAAC
109196 CATTGGCTCG
Statistics
Matches: 92, Mismatches: 0, Indels: 22
0.81 0.00 0.19
Matches are distributed among these distances:
26 52 0.57
30 13 0.14
31 1 0.01
33 26 0.28
ACGTcount: A:0.20, C:0.25, G:0.35, T:0.20
Consensus pattern (32 bp):
CTCGCATGGGGAGAACGCTCGTATGGCTCCTA
Found at i:109134 original size:59 final size:59
Alignment explanation
Indices: 109063--109195 Score: 245
Period size: 59 Copynumber: 2.3 Consensus size: 59
109053 CTGCATACAC
109063 ACCTCGCATGGGGAGAACGCTCGTATGGCTCGCATGGGGAGAACGCTCGTATGGCTCCT
1 ACCTCGCATGGGGAGAACGCTCGTATGGCTCGCATGGGGAGAACGCTCGTATGGCTCCT
109122 ACCTCGCATGGGGAGAACGCTCGTATGGCTCGCATGGGGAGAACGCTCGTATGGCTCCT
1 ACCTCGCATGGGGAGAACGCTCGTATGGCTCGCATGGGGAGAACGCTCGTATGGCTCCT
109181 A--T-GCATGGGGAGAAC
1 ACCTCGCATGGGGAGAAC
109196 CATTGGCTCG
Statistics
Matches: 74, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
56 13 0.18
57 1 0.01
59 60 0.81
ACGTcount: A:0.20, C:0.26, G:0.35, T:0.20
Consensus pattern (59 bp):
ACCTCGCATGGGGAGAACGCTCGTATGGCTCGCATGGGGAGAACGCTCGTATGGCTCCT
Found at i:109219 original size:35 final size:35
Alignment explanation
Indices: 109166--109253 Score: 158
Period size: 35 Copynumber: 2.5 Consensus size: 35
109156 TGGGGAGAAC
*
109166 GCTCGTATGGCTCCTATGCATGGGGAGAACCATTG
1 GCTCGTATGGCTCGTATGCATGGGGAGAACCATTG
*
109201 GCTCGTATGGATCGTATGCATGGGGAGAACCATTG
1 GCTCGTATGGCTCGTATGCATGGGGAGAACCATTG
109236 GCTCGTATGGCTCGTATG
1 GCTCGTATGGCTCGTATG
109254 TCACCCCGTA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 50 1.00
ACGTcount: A:0.19, C:0.20, G:0.33, T:0.27
Consensus pattern (35 bp):
GCTCGTATGGCTCGTATGCATGGGGAGAACCATTG
Found at i:109265 original size:12 final size:12
Alignment explanation
Indices: 109248--109277 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
109238 TCGTATGGCT
109248 CGTATGTCACCC
1 CGTATGTCACCC
109260 CGTATGTCACCC
1 CGTATGTCACCC
109272 CGTATG
1 CGTATG
109278 GCCACCTCGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.17, C:0.37, G:0.20, T:0.27
Consensus pattern (12 bp):
CGTATGTCACCC
Found at i:111899 original size:11 final size:10
Alignment explanation
Indices: 111876--111925 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
111866 TTTGGCATGC
* *
111876 ATAAAATAAT
1 ATAATATAAA
111886 ATAATATAAA
1 ATAATATAAA
111896 TATAA-ATAAA
1 -ATAATATAAA
*
111906 ATAATA-ATA
1 ATAATATAAA
111915 ATAATATAAA
1 ATAATATAAA
111925 A
1 A
111926 ACGTAGAGAC
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
9 12 0.36
10 17 0.52
11 4 0.12
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (10 bp):
ATAATATAAA
Found at i:115749 original size:25 final size:25
Alignment explanation
Indices: 115677--115749 Score: 59
Period size: 25 Copynumber: 3.2 Consensus size: 25
115667 TTGCCCTAAT
115677 CTATCCATTTCACTATATGAAATTA
1 CTATCCATTTCACTATATGAAATTA
* * ***
115702 CTATTCAATT-A-TCCCT--AA-T-
1 CTATCCATTTCACTATATGAAATTA
115721 CTATCCATTTCACTATATGAAATTA
1 CTATCCATTTCACTATATGAAATTA
115746 CTAT
1 CTAT
115750 TTTACTATTA
Statistics
Matches: 32, Mismatches: 10, Indels: 12
0.59 0.19 0.22
Matches are distributed among these distances:
19 8 0.25
20 2 0.06
21 4 0.12
23 4 0.12
24 2 0.06
25 12 0.38
ACGTcount: A:0.34, C:0.22, G:0.03, T:0.41
Consensus pattern (25 bp):
CTATCCATTTCACTATATGAAATTA
Found at i:115751 original size:21 final size:21
Alignment explanation
Indices: 115683--115757 Score: 55
Period size: 21 Copynumber: 3.5 Consensus size: 21
115673 TAATCTATCC
115683 ATTTCACTATATGAAATTACT
1 ATTTCACTATATGAAATTACT
* ** *
115704 A-TTCAAT-TATCCCTAATCTATCC
1 ATTTCACTATAT--GAAAT-TA-CT
115727 ATTTCACTATATGAAATTACT
1 ATTTCACTATATGAAATTACT
*
115748 ATTTTACTAT
1 ATTTCACTAT
115758 TATACATAAA
Statistics
Matches: 39, Mismatches: 9, Indels: 12
0.65 0.15 0.20
Matches are distributed among these distances:
19 3 0.08
20 5 0.13
21 14 0.36
22 4 0.10
23 5 0.13
24 5 0.13
25 3 0.08
ACGTcount: A:0.35, C:0.19, G:0.03, T:0.44
Consensus pattern (21 bp):
ATTTCACTATATGAAATTACT
Found at i:120513 original size:6 final size:6
Alignment explanation
Indices: 120505--120539 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
120495 GACCATCCTC
* *
120505 TCTCTC TCTCTC TCTCTA TCTCTA TCTCTA TCTCT
1 TCTCTA TCTCTA TCTCTA TCTCTA TCTCTA TCTCT
120540 TTCCTTTAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.09, C:0.40, G:0.00, T:0.51
Consensus pattern (6 bp):
TCTCTA
Found at i:120519 original size:12 final size:12
Alignment explanation
Indices: 120502--120539 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
120492 GTAGACCATC
*
120502 CTCTCTCTCTCT
1 CTCTCTCTATCT
120514 CTCTCTCTATCT
1 CTCTCTCTATCT
*
120526 CTATCTCTATCT
1 CTCTCTCTATCT
120538 CT
1 CT
120540 TTCCTTTAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.08, C:0.42, G:0.00, T:0.50
Consensus pattern (12 bp):
CTCTCTCTATCT
Found at i:120670 original size:22 final size:22
Alignment explanation
Indices: 120626--120672 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
120616 GAAAAGTACA
* *
120626 AAAGATAAATGAAGGAAATTTT
1 AAAGATAAATGAAGAAAACTTT
120648 AAAGATAAGATGAA-AAAACTTT
1 AAAGATAA-ATGAAGAAAACTTT
120670 AAA
1 AAA
120673 AGCTTCTGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.60, C:0.02, G:0.15, T:0.23
Consensus pattern (22 bp):
AAAGATAAATGAAGAAAACTTT
Found at i:120674 original size:23 final size:22
Alignment explanation
Indices: 120625--120674 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
120615 AGAAAAGTAC
*
120625 AAAAGATAAATGAAGGAAATTT
1 AAAAGATAAATGAAGAAAATTT
*
120647 TAAAGATAAGATGAA-AAAACTTT
1 AAAAGATAA-ATGAAGAAAA-TTT
120670 AAAAG
1 AAAAG
120675 CTTCTGATGC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
22 11 0.48
23 12 0.52
ACGTcount: A:0.60, C:0.02, G:0.16, T:0.22
Consensus pattern (22 bp):
AAAAGATAAATGAAGAAAATTT
Found at i:125554 original size:44 final size:48
Alignment explanation
Indices: 125488--125584 Score: 139
Period size: 44 Copynumber: 2.1 Consensus size: 48
125478 TTATTTTCGT
125488 TTTTTCGAATAAATGCATGCGAACTAGATATCATGCAGTTAGG-TTTA
1 TTTTTCGAATAAATGCATGCGAACTAGATATCATGCAGTTAGGATTTA
* * *
125535 TTTTT-GAAT-AA-GCATGCGAATTAGATATCATGCGGTTAGGATTTC
1 TTTTTCGAATAAATGCATGCGAACTAGATATCATGCAGTTAGGATTTA
125580 TTTTT
1 TTTTT
125585 ATGGATAACA
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
44 27 0.59
45 10 0.22
46 4 0.09
47 5 0.11
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.40
Consensus pattern (48 bp):
TTTTTCGAATAAATGCATGCGAACTAGATATCATGCAGTTAGGATTTA
Found at i:135090 original size:42 final size:41
Alignment explanation
Indices: 135043--135139 Score: 122
Period size: 42 Copynumber: 2.3 Consensus size: 41
135033 ATAATTTAAG
* * *
135043 TCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATGAAA
1 TCCTTCGGGCCATCAGTAAGCCTTTAGAGCAAGATGAT-AAA
* * *
135085 TCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAG
1 TCCTTCGGGCCATCAGTAAGCCTTTAGAGCAAGATGATAAA
*
135126 TCATTCGGGCCATC
1 TCCTTCGGGCCATC
135140 CATAAAGCCT
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
41 14 0.30
42 33 0.70
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.29
Consensus pattern (41 bp):
TCCTTCGGGCCATCAGTAAGCCTTTAGAGCAAGATGATAAA
Found at i:135148 original size:42 final size:41
Alignment explanation
Indices: 135039--135150 Score: 118
Period size: 42 Copynumber: 2.7 Consensus size: 41
135029 GTAAATAATT
* * *
135039 TAAGTCCTTCGGGCCAT-CAGTAAGTCTTTCGAGCATGATGA
1 TAAGTCCTTCGGGCCATCCA-TAAGCCTTTAGAGCAAGATGA
* * **
135080 TGAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGA
1 T-AAGTCCTTCGGGCCATCCATAAGCCTTTAGAGCAAGATGA
*
135122 TAAGTCATTCGGGCCATCCATAAAGCCTT
1 TAAGTCCTTCGGGCCATCCAT-AAGCCTT
135151 CGGGTAGGAT
Statistics
Matches: 56, Mismatches: 12, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
41 16 0.29
42 40 0.71
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (41 bp):
TAAGTCCTTCGGGCCATCCATAAGCCTTTAGAGCAAGATGA
Found at i:135366 original size:13 final size:13
Alignment explanation
Indices: 135348--135372 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
135338 TAAAGCAAAT
135348 CCATCAGTAAGTG
1 CCATCAGTAAGTG
135361 CCATCAGTAAGT
1 CCATCAGTAAGT
135373 CTTTCGAGCA
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:0.24, G:0.20, T:0.24
Consensus pattern (13 bp):
CCATCAGTAAGTG
Found at i:135495 original size:80 final size:80
Alignment explanation
Indices: 135362--135643 Score: 431
Period size: 80 Copynumber: 3.5 Consensus size: 80
135352 CAGTAAGTGC
*
135362 CATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAACTGGTAAGCCTTCACGGAATA
1 CATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAACTGGTAAGCCTTCACGGAAGA
135427 GTAGTGAAGCAAATT
66 GTAGTGAAGCAAATT
* * * * ** *
135442 CATCAGTAAGTCTTTCGAGCATGGTAATTAAATCCTTTGGGTAATTTTTAAGCCTTCACCGAAGA
1 CATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAACTGGTAAGCCTTCACGGAAGA
**
135507 GTAGTGAAGCAAACC
66 GTAGTGAAGCAAATT
*
135522 CATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGCAACTGGTAAGCCTTCACGGAAGA
1 CATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAACTGGTAAGCCTTCACGGAAGA
135587 GTAGTGAAGCAAATT
66 GTAGTGAAGCAAATT
* *
135602 CATCAGTAAGTCTTTCGAGCAGGATG-TTGAAATCTTTCGGGT
1 CATCAGTAAGTCTTTCGAGCATGATGATT-AAATCCTTCGGGT
135644 CATCAGTAAG
Statistics
Matches: 178, Mismatches: 23, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
79 2 0.01
80 176 0.99
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (80 bp):
CATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAACTGGTAAGCCTTCACGGAAGA
GTAGTGAAGCAAATT
Found at i:135648 original size:42 final size:41
Alignment explanation
Indices: 135601--135713 Score: 147
Period size: 42 Copynumber: 2.7 Consensus size: 41
135591 TGAAGCAAAT
*
135601 TCATCAGTAAGTCTTTCGAGCAGGATGTTGAAATCTTTCGGG
1 TCATCAGTAAGTCTTTCGAGCAGGATGTT-AAATCCTTCGGG
*
135643 TCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGG
1 TCATCAGTAAGTCTTTCGAGCAGGATG-TTAAATCCTTCGGG
* * *
135685 TCATCCA-TAAGTCCTTCGGGTAGGATGTT
1 TCAT-CAGTAAGTCTTTCGAGCAGGATGTT
135714 TTCACACCAA
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
41 2 0.03
42 57 0.90
43 4 0.06
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.34
Consensus pattern (41 bp):
TCATCAGTAAGTCTTTCGAGCAGGATGTTAAATCCTTCGGG
Found at i:136186 original size:53 final size:54
Alignment explanation
Indices: 136123--136260 Score: 217
Period size: 53 Copynumber: 2.6 Consensus size: 54
136113 AGAATCACAC
*
136123 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG-
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGCAGGT
* *
136176 CAGAAGATTGTTCGAGTTTTACTCCCTGAAGCAAGAGGGAGCGAACCCGCCGGT
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGCAGGT
136230 C-GAAGATTGTTCGAGTTCTATACTCCCTGAA
1 CAGAAGATTGTTCGAGTTC--TACTCCCTGAA
136261 CGAATAGGGA
Statistics
Matches: 78, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
53 66 0.85
54 1 0.01
55 11 0.14
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.22
Consensus pattern (54 bp):
CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGCAGGT
Found at i:136290 original size:55 final size:55
Alignment explanation
Indices: 136231--136382 Score: 174
Period size: 55 Copynumber: 2.8 Consensus size: 55
136221 CCCGCCGGTC
* *
136231 GAAGATTGTTCGAGT-TCTATACTCCCTGAACGAATAGGGAGCAGACTCGTTT-TAT
1 GAAGATTATTCGAGTCT-TATACTCCCTGAACGAATAGGGAGCAGACACGTTTGT-T
* *
136286 GAAGATTATTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGTTTGTT
1 GAAGATTATTCGAGTCTTATACTCCCTGAACGAATAGGGAGCAGACACGTTTGTT
* *
136341 GAAG---A-TCAAGTCTTATACTCTCTGAA-GAAATAGGGAGCAGAC
1 GAAGATTATTCGAGTCTTATACTCCCTGAACG-AATAGGGAGCAGAC
136383 TTATCATTTG
Statistics
Matches: 89, Mismatches: 5, Indels: 10
0.86 0.05 0.10
Matches are distributed among these distances:
50 1 0.01
51 34 0.38
52 1 0.01
55 51 0.57
56 2 0.02
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.28
Consensus pattern (55 bp):
GAAGATTATTCGAGTCTTATACTCCCTGAACGAATAGGGAGCAGACACGTTTGTT
Found at i:145844 original size:26 final size:26
Alignment explanation
Indices: 145808--145859 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
145798 GTCTAACGTC
145808 ATTACATAATTAAACAGAAAAATAAG
1 ATTACATAATTAAACAGAAAAATAAG
*
145834 ATTACATAATTAAATAGAAAAATAAG
1 ATTACATAATTAAACAGAAAAATAAG
145860 TGTATTAGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.62, C:0.06, G:0.08, T:0.25
Consensus pattern (26 bp):
ATTACATAATTAAACAGAAAAATAAG
Found at i:149251 original size:16 final size:17
Alignment explanation
Indices: 149230--149263 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
149220 AATTTTTATT
*
149230 ATTTAATATA-AAAATA
1 ATTTAAAATATAAAATA
149246 ATTTAAAATATAAAATA
1 ATTTAAAATATAAAATA
149263 A
1 A
149264 AAATAGAAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
ATTTAAAATATAAAATA
Found at i:154197 original size:23 final size:24
Alignment explanation
Indices: 154169--154216 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
154159 TGTATATATA
154169 TATTTAATTAT-ATTTTATTT-ATT
1 TATTT-ATTATAATTTTATTTCATT
*
154192 TATTTATTATAATTTTTTTTCATT
1 TATTTATTATAATTTTATTTCATT
154216 T
1 T
154217 TTCTTTTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 5 0.23
23 13 0.59
24 4 0.18
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (24 bp):
TATTTATTATAATTTTATTTCATT
Found at i:154498 original size:17 final size:17
Alignment explanation
Indices: 154410--154517 Score: 62
Period size: 17 Copynumber: 6.2 Consensus size: 17
154400 ATATTATATG
**
154410 TATATTTATT-TTTCAT
1 TATATTTATTATTTTTT
*
154426 T-TATTTATTATTATTGT
1 TATATTTATTATT-TTTT
* *
154443 TACTATTTAGTATTTTAT
1 TA-TATTTATTATTTTTT
* **
154461 TATATTATACATACATTTT
1 TATATT-TA-TTATTTTTT
154480 TATATTT-TTATATTTTT
1 TATATTTATTAT-TTTTT
154497 TAT-TTTATTATTTTATT
1 TATATTTATTATTTT-TT
154514 TATA
1 TATA
154518 CTATTTATTT
Statistics
Matches: 71, Mismatches: 11, Indels: 18
0.71 0.11 0.18
Matches are distributed among these distances:
15 8 0.11
16 11 0.15
17 23 0.32
18 8 0.11
19 21 0.30
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.67
Consensus pattern (17 bp):
TATATTTATTATTTTTT
Found at i:154512 original size:13 final size:14
Alignment explanation
Indices: 154486--154529 Score: 58
Period size: 13 Copynumber: 3.4 Consensus size: 14
154476 TTTTTATATT
154486 TTTATATT-TTTTA
1 TTTATATTATTTTA
154499 TTT-TATTATTTTA
1 TTTATATTATTTTA
*
154512 TTTATACTA-TTTA
1 TTTATATTATTTTA
154525 TTTAT
1 TTTAT
154530 TTTCATTATG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
12 4 0.14
13 20 0.71
14 4 0.14
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTATATTATTTTA
Found at i:154642 original size:18 final size:19
Alignment explanation
Indices: 154618--154663 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
154608 TTGTATTATA
*
154618 TTTTTTTCTTC-ATTT-AT
1 TTTTTTTATTCAATTTCAT
154635 TTTATTTTATTCAATTTCAT
1 TTT-TTTTATTCAATTTCAT
154655 TTTTTTTAT
1 TTTTTTTAT
154664 ATTTGTTTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 3 0.12
18 7 0.28
19 10 0.40
20 5 0.20
ACGTcount: A:0.17, C:0.09, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTTTTATTCAATTTCAT
Found at i:155840 original size:19 final size:19
Alignment explanation
Indices: 155816--155852 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
155806 ACCTTACTAA
155816 CTCTTTTCATTTT-TTTCCT
1 CTCTTTT-ATTTTATTTCCT
155835 CTCTTTTATTTTATTTCC
1 CTCTTTTATTTTATTTCC
155853 ATCATCTGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.08, C:0.24, G:0.00, T:0.68
Consensus pattern (19 bp):
CTCTTTTATTTTATTTCCT
Found at i:159279 original size:11 final size:10
Alignment explanation
Indices: 159236--159275 Score: 55
Period size: 11 Copynumber: 3.9 Consensus size: 10
159226 AGGGCAAAAA
159236 AAAAAAGAAG
1 AAAAAAGAAG
159246 CAAAAAAGAAG
1 -AAAAAAGAAG
159257 AAAACAAG-AG
1 AAAA-AAGAAG
159267 AAAAAAGAA
1 AAAAAAGAA
159276 AGAACAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 3 0.11
10 11 0.41
11 13 0.48
ACGTcount: A:0.78, C:0.05, G:0.17, T:0.00
Consensus pattern (10 bp):
AAAAAAGAAG
Found at i:159930 original size:22 final size:22
Alignment explanation
Indices: 159902--159956 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
159892 GCTACCCCAT
*
159902 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAACATCAAATGC
* *
159924 CAAACCTTTGAATATCAAATGT
1 CAAACCTTTGAACATCAAATGC
159946 CAAACCTTTGA
1 CAAACCTTTGA
159957 CCAAACACAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.38, C:0.24, G:0.11, T:0.27
Consensus pattern (22 bp):
CAAACCTTTGAACATCAAATGC
Found at i:161024 original size:106 final size:106
Alignment explanation
Indices: 160902--161860 Score: 1506
Period size: 106 Copynumber: 9.0 Consensus size: 106
160892 ATATCATGCC
* * *
160902 ACTCGAGACAACACAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
*
160967 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * *
161008 ACTCGAGACAACACAAGTTCAATTTTACAACGAATGGACGGATGGTTGTCAACAAACAATTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
*
161073 AATTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * *
161114 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTTTCAATAAACAATTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
161179 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
161220 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAATAATTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
*
161285 AATTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
161326 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
161391 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
161432 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACAGCTGGTTGTCAACAAATAATTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
* *
161497 AATTTCAGAGCCAATTTCAACTTCACATCGAACGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * * *
161538 ACTCTAGATAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATCTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
*
161603 AATTTCAGAGCCAATTTCAACTTCACAGTGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
161644 ACTCAAGACAACACAAGTTCAACTTCACAAGGAAGGGACGGCTGGTTGTCAACAAACAACTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
161709 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
161750 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAAATTCTC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
* * * *
161815 AGTTCCAGAACCAATTTCAACTTCAC-GCCGGAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGG
161856 ACTCG
1 ACTCG
161861 GAACAGTACA
Statistics
Matches: 780, Mismatches: 72, Indels: 2
0.91 0.08 0.00
Matches are distributed among these distances:
105 1 0.00
106 779 1.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:162260 original size:84 final size:83
Alignment explanation
Indices: 162038--162387 Score: 377
Period size: 83 Copynumber: 4.2 Consensus size: 83
162028 ATCCAACTCA
* * * *
162038 AAGAAGGAG-TATCTGTCAATAAAGACCTTCGAGTTCGATTACACTCAGCTCCAAGGCGCATAAT
1 AAGAAGG-GCTATCTGTCAACAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCAT
* *
162102 TTACAGCATAGCTCAAGGC
65 TTGCAGCATAACTCAAGGC
*
162121 TAA-AAGGGCTATCTGTCAGCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCAT
1 -AAGAAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCAT
*
162185 TTGCAACATAACTCAAGGC
65 TTGCAGCATAACTCAAGGC
* * * * * *
162204 AAGAAGGGCTAT-TTTCCAACAAAAGACCTTCGAGTTTGACTACGCTTAACTCCAAGGCATATCA
1 AAGAAGGGCTATCTGT-CAAC-AAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCA
162268 TTTGCAGCATAACTCAAGGC
64 TTTGCAGCATAACTCAAGGC
* * * * * *
162288 TAGAAGGG-TGATCTGTCATCAAAGACCTTCGAGTTCGATTACATTCAACT-CAGAGGCAAATCA
1 AAGAAGGGCT-ATCTGTCAACAAAGACCTTCGAGTTCGACTACACTCAGCTCCA-AGGCACATC-
* *
162351 AATTTACAGCATAACTCAAGAC
63 -ATTTGCAGCATAACTCAAGGC
* *
162373 GAGAAGGGTTATCTG
1 AAGAAGGGCTATCTG
162388 CCATCAAAAT
Statistics
Matches: 228, Mismatches: 28, Indels: 19
0.83 0.10 0.07
Matches are distributed among these distances:
82 7 0.03
83 116 0.51
84 71 0.31
85 33 0.14
86 1 0.00
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (83 bp):
AAGAAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATT
TGCAGCATAACTCAAGGC
Found at i:162406 original size:167 final size:165
Alignment explanation
Indices: 162086--162396 Score: 383
Period size: 167 Copynumber: 1.9 Consensus size: 165
162076 TTACACTCAG
* *
162086 CTCCAAGGCGCATAATTTACAGCATAGCTCAAGGCTAAAAGGGCTATCTGTCAGCAAAGACCTTC
1 CTCCAAGGCACATAATTTACAGCATAACTCAAGGCTAAAAGGGCTATCTGTCAGCAAAGACCTTC
* * * *
162151 GAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAACATAACTCAAGGCAAGAAGGGCTAT
66 GAGTTCGACTACACTCAACTCCAAGGCAAATCATTTACAACATAACTCAAGACAAGAAGGGCTAT
* *
162216 TTTCCAACAAAAGACCTTCGAGTTTGACTACGCTTAA
131 CTGCCAACAAAAGA-C-TCGAGTTTGACTACGCTTAA
* * * * *
162253 CTCCAAGGCATATCATTTGCAGCATAACTCAAGGCTAGAAGGG-TGATCTGTCATCAAAGACCTT
1 CTCCAAGGCACATAATTTACAGCATAACTCAAGGCTAAAAGGGCT-ATCTGTCAGCAAAGACCTT
* * * *
162317 CGAGTTCGATTACATTCAACT-CAGAGGCAAATCAAATTTACAGCATAACTCAAGACGAGAAGGG
65 CGAGTTCGACTACACTCAACTCCA-AGGCAAATC--ATTTACAACATAACTCAAGACAAGAAGGG
* *
162381 TTATCTGCCATCAAAA
127 CTATCTGCCAACAAAA
162397 TTATCGAGTT
Statistics
Matches: 121, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
166 3 0.02
167 81 0.67
169 37 0.31
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (165 bp):
CTCCAAGGCACATAATTTACAGCATAACTCAAGGCTAAAAGGGCTATCTGTCAGCAAAGACCTTC
GAGTTCGACTACACTCAACTCCAAGGCAAATCATTTACAACATAACTCAAGACAAGAAGGGCTAT
CTGCCAACAAAAGACTCGAGTTTGACTACGCTTAA
Found at i:162914 original size:37 final size:37
Alignment explanation
Indices: 162861--162965 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
162851 CCTTTTCGTC
162861 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * * *
162898 TTGCTAGGATTCAAACTCCTAAAAATATGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
** * *
162935 CTACTATTATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
162966 CCACAAGCAT
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.31
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:163373 original size:19 final size:20
Alignment explanation
Indices: 163353--163403 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
163343 TTAACCCTTA
163353 TTATTTATATATATATATAT
1 TTATTTATATATATATATAT
* *
163373 TTAATTATAT-TATATTTAT
1 TTATTTATATATATATATAT
163392 TTATTTAT-TATA
1 TTATTTATATATA
163404 ATTTTTTATC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 1 0.04
19 17 0.63
20 9 0.33
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
TTATTTATATATATATATAT
Found at i:163396 original size:23 final size:22
Alignment explanation
Indices: 163350--163403 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 22
163340 AATTTAACCC
*
163350 TTATTATTTATATATATATATAT
1 TTATTATAT-TATATATATATAT
* *
163373 TTAATTATATTATATTTATTTAT
1 TT-ATTATATTATATATATATAT
163396 TTATTATA
1 TTATTATA
163404 ATTTTTTATC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 6 0.22
23 15 0.56
24 6 0.22
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
TTATTATATTATATATATATAT
Found at i:163490 original size:31 final size:30
Alignment explanation
Indices: 163453--163520 Score: 82
Period size: 33 Copynumber: 2.2 Consensus size: 30
163443 TATATATATA
* *
163453 TATATATATATATTATATTATTATTTTTTTATC
1 TATATATATTTATT-TACTA-TATTTTTTTA-C
*
163486 TATATTTATTTATTTACTATATTTTTTTAC
1 TATATATATTTATTTACTATATTTTTTTAC
163516 TATAT
1 TATAT
163521 TTTCCTAACG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 6 0.19
31 10 0.31
32 4 0.12
33 12 0.38
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (30 bp):
TATATATATTTATTTACTATATTTTTTTAC
Found at i:163514 original size:13 final size:13
Alignment explanation
Indices: 163492--163523 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
163482 TATCTATATT
*
163492 TATTTATTTACTA
1 TATTTTTTTACTA
163505 TATTTTTTTACTA
1 TATTTTTTTACTA
163518 TATTTT
1 TATTTT
163524 CCTAACGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (13 bp):
TATTTTTTTACTA
Found at i:163704 original size:21 final size:20
Alignment explanation
Indices: 163678--163735 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 20
163668 TACACATACA
163678 TTTTTATATTT-TTATATATAT
1 TTTTTAT-TTTATTAT-TATAT
*
163699 TTTTTATTTTATTATTTTAT
1 TTTTTATTTTATTATTATAT
163719 TTATTTATTTTCATTAT
1 TT-TTTATTTT-ATTAT
163736 GTTTTTAGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
20 9 0.27
21 19 0.58
22 5 0.15
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTTTATTTTATTATTATAT
Found at i:163723 original size:17 final size:18
Alignment explanation
Indices: 163677--163724 Score: 55
Period size: 17 Copynumber: 2.6 Consensus size: 18
163667 TTACACATAC
163677 ATTTTTATATTTTTATATAT
1 ATTTTT-TA-TTTTATATAT
163697 ATTTTTTATTTTAT-TAT
1 ATTTTTTATTTTATATAT
163714 -TTTATTTATTT
1 ATTT-TTTATTT
163725 ATTTTCATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 3 0.11
17 10 0.37
18 6 0.22
19 2 0.07
20 6 0.22
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (18 bp):
ATTTTTTATTTTATATAT
Found at i:173140 original size:23 final size:23
Alignment explanation
Indices: 173110--173197 Score: 99
Period size: 23 Copynumber: 3.7 Consensus size: 23
173100 CACATAATTA
173110 TCCCGAAGGACCACATAATTTTG
1 TCCCGAAGGACCACATAATTTTG
*
173133 TCCCGAAGGACCACA-AAGGTTTG
1 TCCCGAAGGACCACATAA-TTTTG
* *
173156 TCCCGAGGGACCACATACTTTTTTG
1 TCCCGAAGGACCACATA--ATTTTG
173181 TCCCGAATGG-CCACATA
1 TCCCGAA-GGACCACATA
173198 GAACCCTCGA
Statistics
Matches: 55, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
22 2 0.04
23 33 0.60
24 1 0.02
25 17 0.31
26 2 0.04
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (23 bp):
TCCCGAAGGACCACATAATTTTG
Found at i:173971 original size:14 final size:14
Alignment explanation
Indices: 173952--173980 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
173942 TATCAATACT
173952 GTTCTTCCAGTACC
1 GTTCTTCCAGTACC
173966 GTTCTTCCAGTACC
1 GTTCTTCCAGTACC
173980 G
1 G
173981 ATACCCTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.34, G:0.17, T:0.34
Consensus pattern (14 bp):
GTTCTTCCAGTACC
Found at i:179815 original size:14 final size:16
Alignment explanation
Indices: 179781--179819 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 16
179771 CATAAGCATT
*
179781 CAAACAAACCACAACA
1 CAAACAATCCACAACA
179797 CAAACAATCCA-AA-A
1 CAAACAATCCACAACA
179811 CAAACAATC
1 CAAACAATC
179820 TAAACCAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.45
15 2 0.09
16 10 0.45
ACGTcount: A:0.62, C:0.33, G:0.00, T:0.05
Consensus pattern (16 bp):
CAAACAATCCACAACA
Found at i:181844 original size:21 final size:22
Alignment explanation
Indices: 181794--181848 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 22
181784 CCCATAGAGG
181794 GGTATCGATACACATTCAAAGA
1 GGTATCGATACACATTCAAAGA
181816 GGGTATCGATACACATTC-AAGCA
1 -GGTATCGATACACATTCAAAG-A
181839 -GTATCGATAC
1 GGTATCGATAC
181849 CGAGCAAGGG
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
21 10 0.32
22 3 0.10
23 18 0.58
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (22 bp):
GGTATCGATACACATTCAAAGA
Found at i:187542 original size:20 final size:21
Alignment explanation
Indices: 187499--187554 Score: 96
Period size: 20 Copynumber: 2.7 Consensus size: 21
187489 TTAGGAGCAT
*
187499 AGGGGTATCGGTACACCTTCA
1 AGGGGTATCGATACACCTTCA
187520 AGGGGTATCGATACACC-TCA
1 AGGGGTATCGATACACCTTCA
187540 AGGGGTATCGATACA
1 AGGGGTATCGATACA
187555 TCGTGTGTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 18 0.53
21 16 0.47
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.21
Consensus pattern (21 bp):
AGGGGTATCGATACACCTTCA
Found at i:189450 original size:21 final size:22
Alignment explanation
Indices: 189424--189496 Score: 78
Period size: 22 Copynumber: 3.3 Consensus size: 22
189414 CACTGAAGTG
189424 CCACATAA-TTGTCCCAAAGGA
1 CCACATAAGTTGTCCCAAAGGA
* * *
189445 CCACATAATTTTATCCCGAAGGA
1 CCACATAA-GTTGTCCCAAAGGA
*
189468 CCACA-AAGGTTGTCCCAAGGGA
1 CCACATAA-GTTGTCCCAAAGGA
189490 CCACATA
1 CCACATA
189497 CTTTTTTCCC
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
21 8 0.19
22 17 0.40
23 17 0.40
ACGTcount: A:0.36, C:0.29, G:0.16, T:0.19
Consensus pattern (22 bp):
CCACATAAGTTGTCCCAAAGGA
Found at i:189466 original size:23 final size:23
Alignment explanation
Indices: 189435--189520 Score: 86
Period size: 23 Copynumber: 3.8 Consensus size: 23
189425 CACATAATTG
*
189435 TCCCAAAGGACCACATAATTTTA
1 TCCCGAAGGACCACATAATTTTA
** *
189458 TCCCGAAGGACCACA-AAGGTTG
1 TCCCGAAGGACCACATAATTTTA
* *
189480 TCCC-AAGGGACCACATACTTTTT
1 TCCCGAA-GGACCACATAATTTTA
*
189503 TCCCGAATGACCACATAA
1 TCCCGAAGGACCACATAA
189521 AACCCTCGAC
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
21 2 0.04
22 16 0.32
23 30 0.60
24 2 0.04
ACGTcount: A:0.34, C:0.29, G:0.15, T:0.22
Consensus pattern (23 bp):
TCCCGAAGGACCACATAATTTTA
Found at i:189482 original size:45 final size:45
Alignment explanation
Indices: 189432--189517 Score: 136
Period size: 45 Copynumber: 1.9 Consensus size: 45
189422 TGCCACATAA
189432 TTGTCCCAAAGGACCACATAATTTTATCCCGAAGGACCACAAAGG
1 TTGTCCCAAAGGACCACATAATTTTATCCCGAAGGACCACAAAGG
* * * *
189477 TTGTCCCAAGGGACCACATACTTTTTTCCCGAATGACCACA
1 TTGTCCCAAAGGACCACATAATTTTATCCCGAAGGACCACA
189518 TAAAACCCTC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.23
Consensus pattern (45 bp):
TTGTCCCAAAGGACCACATAATTTTATCCCGAAGGACCACAAAGG
Found at i:189490 original size:22 final size:22
Alignment explanation
Indices: 189424--189496 Score: 71
Period size: 23 Copynumber: 3.3 Consensus size: 22
189414 CACTGAAGTG
189424 CCACATAA--TTGTCCCAAAGGA
1 CCACATAAGGTTGTCCC-AAGGA
** *
189445 CCACATAATTTTATCCCGAAGGA
1 CCACATAAGGTTGTCCC-AAGGA
189468 CCACA-AAGGTTGTCCCAAGGGA
1 CCACATAAGGTTGTCCCAA-GGA
189490 CCACATA
1 CCACATA
189497 CTTTTTTCCC
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
21 10 0.23
22 16 0.37
23 17 0.40
ACGTcount: A:0.36, C:0.29, G:0.16, T:0.19
Consensus pattern (22 bp):
CCACATAAGGTTGTCCCAAGGA
Found at i:193446 original size:30 final size:29
Alignment explanation
Indices: 193389--193456 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 29
193379 ACAAGACTTA
* * *
193389 GAAAAATTTGGGGACCATTCTATAATTTT
1 GAAAAAGTTGGGGACCAATCGATAATTTT
*
193418 TAAAAAGTTGGGGACCAAATCGATAATTTT
1 GAAAAAGTTGGGGACC-AATCGATAATTTT
*
193448 GGAAAAGTT
1 GAAAAAGTT
193457 TTGGATTTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 14 0.44
30 18 0.56
ACGTcount: A:0.38, C:0.09, G:0.21, T:0.32
Consensus pattern (29 bp):
GAAAAAGTTGGGGACCAATCGATAATTTT
Found at i:193447 original size:29 final size:30
Alignment explanation
Indices: 193389--193453 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
193379 ACAAGACTTA
* * *
193389 GAAAAATTTGGGGACCATTCTATAATTTTT
1 GAAAAAGTTGGGGACCAATCGATAATTTTT
*
193419 -AAAAAGTTGGGGACCAAATCGATAATTTTG
1 GAAAAAGTTGGGGACC-AATCGATAATTTTT
193449 GAAAA
1 GAAAA
193454 GTTTTGGATT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 14 0.48
30 11 0.38
31 4 0.14
ACGTcount: A:0.40, C:0.09, G:0.20, T:0.31
Consensus pattern (30 bp):
GAAAAAGTTGGGGACCAATCGATAATTTTT
Found at i:194842 original size:17 final size:17
Alignment explanation
Indices: 194818--194892 Score: 71
Period size: 17 Copynumber: 4.4 Consensus size: 17
194808 GATTTTTAGT
194818 TATCAGATATTTACAGA
1 TATCAGATATTTACAGA
* * * *
194835 TATAAGATAATTATAGT
1 TATCAGATATTTACAGA
*
194852 TATCATATATTTACA-A
1 TATCAGATATTTACAGA
* *
194868 TATCATATATTTTACAGT
1 TATCAGATA-TTTACAGA
194886 TATCAGA
1 TATCAGA
194893 CACAGATTAA
Statistics
Matches: 45, Mismatches: 11, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
16 9 0.20
17 30 0.67
18 6 0.13
ACGTcount: A:0.41, C:0.09, G:0.08, T:0.41
Consensus pattern (17 bp):
TATCAGATATTTACAGA
Found at i:194887 original size:34 final size:34
Alignment explanation
Indices: 194792--194892 Score: 116
Period size: 34 Copynumber: 2.9 Consensus size: 34
194782 AATTATAATG
194792 TTTACAATAATCATATGATTTT-TAGTTATCAGATA
1 TTTACAAT-ATCATAT-ATTTTATAGTTATCAGATA
* * * *
194827 TTTACAGATATAAGATA-ATTATAGTTATCATATA
1 TTTACA-ATATCATATATTTTATAGTTATCAGATA
*
194861 TTTACAATATCATATATTTTACAGTTATCAGA
1 TTTACAATATCATATATTTTATAGTTATCAGA
194893 CACAGATTAA
Statistics
Matches: 54, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
33 10 0.19
34 31 0.57
35 11 0.20
36 2 0.04
ACGTcount: A:0.40, C:0.09, G:0.08, T:0.44
Consensus pattern (34 bp):
TTTACAATATCATATATTTTATAGTTATCAGATA
Found at i:199324 original size:31 final size:31
Alignment explanation
Indices: 199267--199325 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
199257 GGTTCGTGCT
*
199267 ATCATTATTTTAAACATGTAACATGTGTAGC
1 ATCATTATTTTAAACATATAACATGTGTAGC
* * *
199298 ATCATTATTTTAAATATATTATATGTGT
1 ATCATTATTTTAAACATATAACATGTGT
199326 TGCTTCATCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.36, C:0.08, G:0.10, T:0.46
Consensus pattern (31 bp):
ATCATTATTTTAAACATATAACATGTGTAGC
Found at i:200102 original size:90 final size:92
Alignment explanation
Indices: 199941--200130 Score: 240
Period size: 90 Copynumber: 2.1 Consensus size: 92
199931 TTAACAACGA
* * * * *
199941 GTACTAAAATGAAATAAAAACTAAATTTTAGGTTTTATTTTAAAAAAAATTAAAAATTTAAATAC
1 GTACTAAAATGAAATAAAAACTAAATCTTAAGTATGATTTTAAAAAAAATTAAAAATTTAAATAA
*
200006 TAAAACAAACTAAAGCTGATAGTTTAG
66 TAAAACAAACTAAAACTGATAGTTTAG
* * * * *
200033 GTACTAAAATGAAAT-GAAATTAAATCTTAAGTATGATTTT-AAAAGAATTAAAAGTTTAGATAA
1 GTACTAAAATGAAATAAAAACTAAATCTTAAGTATGATTTTAAAAAAAATTAAAAATTTAAATAA
* *
200096 TAAAACAGACTAAAACTGATATTTTAG
66 TAAAACAAACTAAAACTGATAGTTTAG
*
200123 ATACTAAA
1 GTACTAAA
200131 CACATAGTTT
Statistics
Matches: 84, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
90 50 0.60
91 19 0.23
92 15 0.18
ACGTcount: A:0.52, C:0.06, G:0.10, T:0.32
Consensus pattern (92 bp):
GTACTAAAATGAAATAAAAACTAAATCTTAAGTATGATTTTAAAAAAAATTAAAAATTTAAATAA
TAAAACAAACTAAAACTGATAGTTTAG
Found at i:213077 original size:26 final size:25
Alignment explanation
Indices: 213029--213077 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
213019 ATTTATATAC
* *
213029 TTTTTAATAAAATTTATATATAATT
1 TTTTTAATAAAATTTAAAGATAATT
*
213054 TTTTTTATAAAATTTAAAAGATAA
1 TTTTTAATAAAATTT-AAAGATAA
213078 ATGGGTAGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 14 0.70
26 6 0.30
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (25 bp):
TTTTTAATAAAATTTAAAGATAATT
Found at i:227300 original size:11 final size:11
Alignment explanation
Indices: 227286--227324 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
227276 TTCAAGTTTG
227286 TAATATAATAA
1 TAATATAATAA
227297 TAATATAATAA
1 TAATATAATAA
* *
227308 TAATAAAATAT
1 TAATATAATAA
227319 TAATAT
1 TAATAT
227325 TATGGATGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
TAATATAATAA
Done.