Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 85 of 276
Found at i:26364119 original size:10 final size:10
Alignment explanation
Indices: 26364104--26364133 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
26364094 AGAACAAATT
26364104 TTTGTCCATC
1 TTTGTCCATC
26364114 TTTGTCCATC
1 TTTGTCCATC
*
26364124 TTTGTTCATC
1 TTTGTCCATC
26364134 ATAGCCTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.10, C:0.27, G:0.10, T:0.53
Consensus pattern (10 bp):
TTTGTCCATC
Found at i:26366460 original size:42 final size:42
Alignment explanation
Indices: 26366401--26366480 Score: 151
Period size: 42 Copynumber: 1.9 Consensus size: 42
26366391 ATCCATGACG
26366401 TTAAGGTGTGGCAATGGCAGTATGCATGTCTAGGATTGATCA
1 TTAAGGTGTGGCAATGGCAGTATGCATGTCTAGGATTGATCA
*
26366443 TTAAGGTGTGGCAATGGCGGTATGCATGTCTAGGATTG
1 TTAAGGTGTGGCAATGGCAGTATGCATGTCTAGGATTG
26366481 GATCCGAAGG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.24, C:0.11, G:0.34, T:0.31
Consensus pattern (42 bp):
TTAAGGTGTGGCAATGGCAGTATGCATGTCTAGGATTGATCA
Found at i:26367687 original size:27 final size:28
Alignment explanation
Indices: 26367653--26367709 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
26367643 TAGATAGCTA
26367653 ATAATATT-AAAACATATACATAATAAT
1 ATAATATTAAAAACATATACATAATAAT
* *
26367680 ATAATATTAAAAACATATATATATTAAT
1 ATAATATTAAAAACATATACATAATAAT
26367708 AT
1 AT
26367710 CAAAAATGCA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 8 0.30
28 19 0.70
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (28 bp):
ATAATATTAAAAACATATACATAATAAT
Found at i:26368989 original size:16 final size:16
Alignment explanation
Indices: 26368970--26369000 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
26368960 ATGGGTATTG
26368970 GGTTGTAAGGGTTTTA
1 GGTTGTAAGGGTTTTA
26368986 GGTTGTAAGGGTTTT
1 GGTTGTAAGGGTTTT
26369001 GGGCCTCTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.00, G:0.39, T:0.45
Consensus pattern (16 bp):
GGTTGTAAGGGTTTTA
Found at i:26371956 original size:6 final size:6
Alignment explanation
Indices: 26371945--26371974 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
26371935 GAAAAGAGAA
26371945 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
26371975 GGGTCTTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
ATTTTT
Found at i:26373747 original size:14 final size:14
Alignment explanation
Indices: 26373728--26373757 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
26373718 TATTTGATTG
26373728 TTAGTCCATCATTT
1 TTAGTCCATCATTT
*
26373742 TTAGTCCATTATTT
1 TTAGTCCATCATTT
26373756 TT
1 TT
26373758 GTGTTGTGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.20, C:0.17, G:0.07, T:0.57
Consensus pattern (14 bp):
TTAGTCCATCATTT
Found at i:26374485 original size:132 final size:132
Alignment explanation
Indices: 26374099--26374489 Score: 489
Period size: 132 Copynumber: 3.0 Consensus size: 132
26374089 TTTAAAAATT
* * * * * *
26374099 CTTTAAAACG-AAGACGATGTTCGATATTTGGCAACTCGCGAAATTGTGCCCTAACGTGCTGGGT
1 CTTTAAAACGAAAGA-AATGTTCGATGTTTGGCAATTCGGGGAATTGTGCCCTATCGTGCTGGGT
* * * * * ** * * *
26374163 CGCAATTTCTCGTTTGCTCAAGATAATCGAAGGTCTCTTTAGAATTTCATTCATGATTTGTAAAA
65 TGCAATTTCTCGTTTGTTCAAAATGATCGAAGATCTCTTCGGAATTTCACTCATGTTTTCT-AAA
26374228 AACC
129 AACC
* *
26374232 CTTTAAAACGAAAGAAATGTTCGATGTTTGGTAATTC-GAGAATTGTGCCCTATCGTGCTGGGTT
1 CTTTAAAACGAAAGAAATGTTCGATGTTTGGCAATTCGGGGAATTGTGCCCTATCGTGCTGGGTT
* * * * * *
26374296 GCACTTTTTCATTTGTTCAAAACGATCGAAGATTTCTTCGGAATTTCACTCACGTTTTCTAAAAA
66 GCAATTTCTCGTTTGTTCAAAATGATCGAAGATCTCTTCGGAATTTCACTCATGTTTTCTAAAAA
26374361 CC
131 CC
*
26374363 CTTTAAAACGAAAGAAATGTTCGATGTTTGGCAATTCGGGGAATAGTGCCCTATCGTGCTGGGTT
1 CTTTAAAACGAAAGAAATGTTCGATGTTTGGCAATTCGGGGAATTGTGCCCTATCGTGCTGGGTT
* * * *
26374428 GCAATCTCCCGTTTGTTCAAAATGATCGAATATCTCTTCGGAATTTCACTCGTGTTTTCTAA
66 GCAATTTCTCGTTTGTTCAAAATGATCGAAGATCTCTTCGGAATTTCACTCATGTTTTCTAA
26374490 GGTGAGGCAA
Statistics
Matches: 219, Mismatches: 37, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
131 43 0.20
132 144 0.66
133 28 0.13
134 4 0.02
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (132 bp):
CTTTAAAACGAAAGAAATGTTCGATGTTTGGCAATTCGGGGAATTGTGCCCTATCGTGCTGGGTT
GCAATTTCTCGTTTGTTCAAAATGATCGAAGATCTCTTCGGAATTTCACTCATGTTTTCTAAAAA
CC
Found at i:26378187 original size:16 final size:15
Alignment explanation
Indices: 26378166--26378199 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
26378156 ATTTGGTTAT
26378166 TTTTAATTTCTATAAA
1 TTTTAATTTCTA-AAA
*
26378182 TTTTAATTTTTAAAA
1 TTTTAATTTCTAAAA
26378197 TTT
1 TTT
26378200 CAGTCATCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTTAATTTCTAAAA
Found at i:26381955 original size:29 final size:31
Alignment explanation
Indices: 26381917--26381985 Score: 81
Period size: 29 Copynumber: 2.3 Consensus size: 31
26381907 TATATATAGA
*
26381917 CTAAATAAAATAATAAAAT-AATAA-AA-TAT
1 CTAATTAAAAT-ATAAAATAAATAATAATTAT
* *
26381946 CTTATTAAAATATTAAATAAATAATAATTAT
1 CTAATTAAAATATAAAATAAATAATAATTAT
26381977 CTAATTAAA
1 CTAATTAAA
26381986 TAACTATAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 6 0.18
29 14 0.42
30 2 0.06
31 11 0.33
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (31 bp):
CTAATTAAAATATAAAATAAATAATAATTAT
Found at i:26381962 original size:8 final size:8
Alignment explanation
Indices: 26381920--26381944 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
26381910 ATATAGACTA
26381920 AATAAAAT
1 AATAAAAT
26381928 AATAAAAT
1 AATAAAAT
26381936 AATAAAAT
1 AATAAAAT
26381944 A
1 A
26381945 TCTTATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:26382265 original size:30 final size:30
Alignment explanation
Indices: 26382198--26382265 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
26382188 CACCCTTAAA
* * *
26382198 ATATTTGCACTATTAATCCTTCAACTTTTT
1 ATATTTACACTATTAATCCTTCAAATTTTG
26382228 ATATTTACACT-TTAATCCCTT-AAATTTTG
1 ATATTTACACTATTAAT-CCTTCAAATTTTG
26382257 AGTATTTAC
1 A-TATTTAC
26382266 TCTTGGGCCA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 12 0.36
30 21 0.64
ACGTcount: A:0.29, C:0.18, G:0.04, T:0.49
Consensus pattern (30 bp):
ATATTTACACTATTAATCCTTCAAATTTTG
Found at i:26385162 original size:36 final size:36
Alignment explanation
Indices: 26385079--26385162 Score: 89
Period size: 36 Copynumber: 2.3 Consensus size: 36
26385069 AAGGAAGTAA
* * *
26385079 ACCAGCGCCACCGCCACCACCAGCTCCTGCTCCACC
1 ACCAGCACCACCGCCAACACCAGCTCCTACTCCACC
* * * *
26385115 TCCAACTCCACCGCCAACAGC-GCCTCCTACTCCACC
1 ACCAGCACCACCGCCAACACCAG-CTCCTACTCCACC
26385151 ACCAGCACCACC
1 ACCAGCACCACC
26385163 AAATCCACCG
Statistics
Matches: 38, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
35 1 0.03
36 37 0.97
ACGTcount: A:0.23, C:0.57, G:0.11, T:0.10
Consensus pattern (36 bp):
ACCAGCACCACCGCCAACACCAGCTCCTACTCCACC
Found at i:26385179 original size:27 final size:27
Alignment explanation
Indices: 26385161--26385279 Score: 159
Period size: 27 Copynumber: 4.4 Consensus size: 27
26385151 ACCAGCACCA
* *
26385161 CCAAATCCACCGACTCCACCGGTTCCT
1 CCAAGTCCACCGACTCCACCGGTACCT
26385188 CCAAGTCCACCGACTCCACCGGTACCT
1 CCAAGTCCACCGACTCCACCGGTACCT
* *
26385215 CCAAGTCCACCGGA-TCCACCGGTTCGT
1 CCAAGTCCACC-GACTCCACCGGTACCT
* * *
26385242 CCAAGTCCACCGAATCCTCCGGTTCCT
1 CCAAGTCCACCGACTCCACCGGTACCT
26385269 CCAAGTCCACC
1 CCAAGTCCACC
26385280 CAAACCACCA
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
26 2 0.02
27 80 0.95
28 2 0.02
ACGTcount: A:0.21, C:0.46, G:0.15, T:0.18
Consensus pattern (27 bp):
CCAAGTCCACCGACTCCACCGGTACCT
Found at i:26385207 original size:54 final size:54
Alignment explanation
Indices: 26385149--26385254 Score: 151
Period size: 54 Copynumber: 2.0 Consensus size: 54
26385139 TCCTACTCCA
26385149 CCACCAGCACCACCAAATCCACC-GACTCCACCGGTTCCTCCAAGTCCACCGACT
1 CCACCAGCACCACCAAATCCACCGGA-TCCACCGGTTCCTCCAAGTCCACCGACT
* * * * *
26385203 CCACCGGTACCTCCAAGTCCACCGGATCCACCGGTTCGTCCAAGTCCACCGA
1 CCACCAGCACCACCAAATCCACCGGATCCACCGGTTCCTCCAAGTCCACCGA
26385255 ATCCTCCGGT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
54 44 0.96
55 2 0.04
ACGTcount: A:0.24, C:0.47, G:0.15, T:0.14
Consensus pattern (54 bp):
CCACCAGCACCACCAAATCCACCGGATCCACCGGTTCCTCCAAGTCCACCGACT
Found at i:26385264 original size:54 final size:54
Alignment explanation
Indices: 26385161--26385279 Score: 177
Period size: 54 Copynumber: 2.2 Consensus size: 54
26385151 ACCAGCACCA
* *
26385161 CCAAATCCACCGACTCCACCGGTTCCTCCAAGTCCACCGACTCCACCGGTACCT
1 CCAAGTCCACCGACTCCACCGGTTCCTCCAAGTCCACCGAATCCACCGGTACCT
* * *
26385215 CCAAGTCCACCGGA-TCCACCGGTTCGTCCAAGTCCACCGAATCCTCCGGTTCCT
1 CCAAGTCCACC-GACTCCACCGGTTCCTCCAAGTCCACCGAATCCACCGGTACCT
26385269 CCAAGTCCACC
1 CCAAGTCCACC
26385280 CAAACCACCA
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 57 0.97
55 2 0.03
ACGTcount: A:0.21, C:0.46, G:0.15, T:0.18
Consensus pattern (54 bp):
CCAAGTCCACCGACTCCACCGGTTCCTCCAAGTCCACCGAATCCACCGGTACCT
Found at i:26385300 original size:54 final size:54
Alignment explanation
Indices: 26385188--26385306 Score: 130
Period size: 54 Copynumber: 2.2 Consensus size: 54
26385178 ACCGGTTCCT
* ** * **** **
26385188 CCAAGTCCACCGACTCCACCGGTACCTCCAAGTCCACCGGATCCACCGGTTCGT
1 CCAAGTCCACCGAATCCACCGGTACCTCCAAGTCCACCCAAACCACCACCACCA
* *
26385242 CCAAGTCCACCGAATCCTCCGGTTCCTCCAAGTCCACCCAAACCACCACCACCA
1 CCAAGTCCACCGAATCCACCGGTACCTCCAAGTCCACCCAAACCACCACCACCA
26385296 CCAAGTCCACC
1 CCAAGTCCACC
26385307 TACGCCACCA
Statistics
Matches: 53, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.24, C:0.48, G:0.13, T:0.14
Consensus pattern (54 bp):
CCAAGTCCACCGAATCCACCGGTACCTCCAAGTCCACCCAAACCACCACCACCA
Found at i:26391734 original size:42 final size:42
Alignment explanation
Indices: 26391636--26391727 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
26391626 TATAGATTCT
* **
26391636 CCACAGCTCATGTGAGCGGCATCGTGTAGCTAACATCTCAAC
1 CCACAGCTCATGTGAACAACATCGTGTAGCTAACATCTCAAC
26391678 CCACAGCTCATGTGAACAACATCGTGTAGCTAACATCTCAAC
1 CCACAGCTCATGTGAACAACATCGTGTAGCTAACATCTCAAC
*
26391720 CCATAGCT
1 CCACAGCT
26391728 TGTGTGAGCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (42 bp):
CCACAGCTCATGTGAACAACATCGTGTAGCTAACATCTCAAC
Found at i:26391926 original size:16 final size:16
Alignment explanation
Indices: 26391905--26391973 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
26391895 TTTGGTTCGC
26391905 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
26391921 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
26391937 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
26391954 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
26391970 TGTA
1 TGTA
26391974 ATAGCTAATC
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:26391951 original size:33 final size:32
Alignment explanation
Indices: 26391905--26391973 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
26391895 TTTGGTTCGC
26391905 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
26391937 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGTGTATTGGATTAGAGG
26391970 TGTA
1 TGTA
26391974 ATAGCTAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 6 0.17
33 30 0.83
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTGTATTGGATTAGAGG
Found at i:26392038 original size:44 final size:45
Alignment explanation
Indices: 26391954--26392044 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
26391944 GGATTAGAGG
* * *
26391954 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
26391999 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
26392043 TG
1 TG
26392045 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:26392230 original size:18 final size:17
Alignment explanation
Indices: 26392207--26392243 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
26392197 AATTATTATT
26392207 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
26392223 AAATATATGATTTAATA
1 AAATATATGATTTAATA
26392240 AAAT
1 AAAT
26392244 TTAAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:26392314 original size:26 final size:28
Alignment explanation
Indices: 26392285--26392345 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
26392275 TATGAATTTG
*
26392285 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
26392311 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
26392339 TAAAATT
1 TATAATT
26392346 CTTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:26392314 original size:101 final size:99
Alignment explanation
Indices: 26392187--26392563 Score: 408
Period size: 91 Copynumber: 4.0 Consensus size: 99
26392177 ATTTAATCAT
* * * *
26392187 ATTTAAACATAATTATTATTAAATATATTTTAATTAA-AATATATGATTTAATAAAATTTAAAAT
1 ATTTAAA-ATAATTAATATTAAATATAATTTAA-TAATAATATATAATTTCATAAAATTT-AAAT
* * * *
26392251 AATTATAACTAATAAATTATCTTATATGAATTTGTATA
63 AATTATGA-TAATAAATTTTCTTATATGAATTTATACA
* * *
26392289 ATTTAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCATAAAA--T---T--C
1 ATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTAAATAAT
26392347 T-TGATAATAAATTTTCTTATATGAATTTATACA
66 TATGATAATAAATTTTCTTATATGAATTTATACA
*
26392380 ATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCATAAAA--T---T-A-
1 ATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTAAATAAT
*
26392438 -GTGATAATAAATTTTCTTATATGAATTTATACA
66 TATGATAATAAATTTTCTTATATGAATTTATACA
* *
26392471 ATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCATAAAA--T---T--C
1 ATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTAAATAAT
26392529 T-TGATAATAAATTTTCTTATATGAATTTATACA
66 TATGATAATAAATTTTCTTATATGAATTTATACA
26392562 AT
1 AT
26392564 AGATATTTAA
Statistics
Matches: 258, Mismatches: 12, Indels: 21
0.89 0.04 0.07
Matches are distributed among these distances:
91 203 0.79
92 2 0.01
93 1 0.00
95 1 0.00
99 1 0.00
100 3 0.01
101 40 0.16
102 7 0.03
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (99 bp):
ATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTAAATAAT
TATGATAATAAATTTTCTTATATGAATTTATACA
Found at i:26392355 original size:91 final size:91
Alignment explanation
Indices: 26392260--26392563 Score: 536
Period size: 91 Copynumber: 3.3 Consensus size: 91
26392250 TAATTATAAC
* * * * *
26392260 TAATAAATTATCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
26392325 AATATATAATTTCATAAAATTCTTGA
66 GATATATAATTTCATAAAATTCTTGA
26392351 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
**
26392416 GATATATAATTTCATAAAATTAGTGA
66 GATATATAATTTCATAAAATTCTTGA
26392442 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
26392507 GATATATAATTTCATAAAATTCTTGA
66 GATATATAATTTCATAAAATTCTTGA
26392533 TAATAAATTTTCTTATATGAATTTATACAAT
1 TAATAAATTTTCTTATATGAATTTATACAAT
26392564 AGATATTTAA
Statistics
Matches: 203, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
91 203 1.00
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (91 bp):
TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
GATATATAATTTCATAAAATTCTTGA
Found at i:26407235 original size:41 final size:42
Alignment explanation
Indices: 26407177--26407374 Score: 214
Period size: 41 Copynumber: 4.8 Consensus size: 42
26407167 TTAAACAGAT
** * * *
26407177 TCACCGGCATTTTGCCTGCTAGGCTTAAAGCCTGATTCA-GTA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGA-TAATGTA
* *
26407219 -CACCGGCACTT-AGCCTGCTAGACATATAGTCTGA-AATGTA
1 TCACCGGCA-TTAAGCCTGCTAGACTTAAAGTCTGATAATGTA
*
26407259 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCT-AAAATGTA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGATAATGTA
26407300 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTG--AAT-TA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGATAATGTA
* *
26407339 CTTCACCGGCATTAAGCCTGCTAGACGTAACGTCTG
1 --TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTG
26407375 TATTACATTC
Statistics
Matches: 138, Mismatches: 10, Indels: 17
0.84 0.06 0.10
Matches are distributed among these distances:
39 3 0.02
40 9 0.07
41 124 0.90
42 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (42 bp):
TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGATAATGTA
Found at i:26409344 original size:12 final size:12
Alignment explanation
Indices: 26409327--26409351 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
26409317 GAAACTTGAT
26409327 TTCACTTAGAAA
1 TTCACTTAGAAA
26409339 TTCACTTAGAAA
1 TTCACTTAGAAA
26409351 T
1 T
26409352 CAAAAGTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (12 bp):
TTCACTTAGAAA
Found at i:26422315 original size:17 final size:17
Alignment explanation
Indices: 26422293--26422350 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
26422283 ATAAAATTTC
26422293 AATAATTTATTTTATTA
1 AATAATTTATTTTATTA
** *
26422310 AATAATAAATGTTATTTA
1 AATAATTTATTTTA-TTA
26422328 TAA-AATTTATTTTATTA
1 -AATAATTTATTTTATTA
*
26422345 AGTAAT
1 AATAAT
26422351 AATAGGTTAA
Statistics
Matches: 31, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
16 1 0.03
17 17 0.55
18 11 0.35
19 2 0.06
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (17 bp):
AATAATTTATTTTATTA
Found at i:26429556 original size:52 final size:52
Alignment explanation
Indices: 26429478--26429576 Score: 198
Period size: 52 Copynumber: 1.9 Consensus size: 52
26429468 ACTACTAAGC
26429478 AGTGTTGTCCCTCCAAAAGGGAAAAAAAATTTGAAATGGGGGACTTTTAATG
1 AGTGTTGTCCCTCCAAAAGGGAAAAAAAATTTGAAATGGGGGACTTTTAATG
26429530 AGTGTTGTCCCTCCAAAAGGGAAAAAAAATTTGAAATGGGGGACTTT
1 AGTGTTGTCCCTCCAAAAGGGAAAAAAAATTTGAAATGGGGGACTTT
26429577 ATAAGCATGG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.36, C:0.12, G:0.25, T:0.26
Consensus pattern (52 bp):
AGTGTTGTCCCTCCAAAAGGGAAAAAAAATTTGAAATGGGGGACTTTTAATG
Found at i:26430212 original size:101 final size:103
Alignment explanation
Indices: 26430056--26430321 Score: 315
Period size: 101 Copynumber: 2.6 Consensus size: 103
26430046 TTTTAAATTG
* * * * * *
26430056 TTAGTGTTTTGTGATTTATCAATAACCTAATTTGTTTTTAAAAAATGTTATAGTTATTTTATTAG
1 TTAGTGTTTTGTGATTTTTTAATAA-TTAATTTTTTTTTAAATAATTTTATAGTTATTTTATTAG
* *
26430121 TAATTTATGGTTA-GTT-TACAAATTGTTAGTGTTTAGT
65 CAATTTATGATTAGGTTATACAAATTGTTAGTGTTTAGT
* *
26430158 TTA-TGGTTTTGTGATTTTTTAATAATTTATTTTTTTTTAAATAATTTTATAGTTATTTTGTTAG
1 TTAGT-GTTTTGTGATTTTTTAATAATTAATTTTTTTTTAAATAATTTTATAGTTATTTTATTAG
* *
26430222 CAATTTATTATTAGGTTATATAAATTGTTAGTGTTTAGT
65 CAATTTATGATTAGGTTATACAAATTGTTAGTGTTTAGT
* * * *
26430261 TTAGTGTTTTGTGATTTTTTATTAATGTAAATTTTTTTATAATGTAATTTTAT-TTTATTTT
1 TTAGTGTTTTGTGATTTTTTAATAAT-T-AATTTTTTTTTAA-ATAATTTTATAGTTATTTT
26430322 TATTTATTTG
Statistics
Matches: 140, Mismatches: 17, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
101 44 0.31
102 24 0.17
103 43 0.31
104 2 0.01
105 18 0.13
106 9 0.06
ACGTcount: A:0.27, C:0.02, G:0.13, T:0.58
Consensus pattern (103 bp):
TTAGTGTTTTGTGATTTTTTAATAATTAATTTTTTTTTAAATAATTTTATAGTTATTTTATTAGC
AATTTATGATTAGGTTATACAAATTGTTAGTGTTTAGT
Found at i:26430309 original size:16 final size:18
Alignment explanation
Indices: 26430275--26430319 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
26430265 TGTTTTGTGA
26430275 TTTTTTATTAATGTAAAT
1 TTTTTTATTAATGTAAAT
*
26430293 TTTTTTA-TAATGTAATT
1 TTTTTTATTAATGTAAAT
26430310 TTATTTTATT
1 TT-TTTTATT
26430320 TTTATTTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 11 0.46
18 12 0.50
19 1 0.04
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (18 bp):
TTTTTTATTAATGTAAAT
Found at i:26431782 original size:17 final size:17
Alignment explanation
Indices: 26431760--26431798 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
26431750 GAATTGAAGG
26431760 TTAAATTCCAAAACAAA
1 TTAAATTCCAAAACAAA
26431777 TTAAATTCCAAAACAAA
1 TTAAATTCCAAAACAAA
26431794 TTAAA
1 TTAAA
26431799 GAATAATCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.59, C:0.15, G:0.00, T:0.26
Consensus pattern (17 bp):
TTAAATTCCAAAACAAA
Found at i:26434903 original size:18 final size:19
Alignment explanation
Indices: 26434877--26434913 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
26434867 CTCCCATTCC
26434877 CTTTCTTCTTCCCCATTTT
1 CTTTCTTCTTCCCCATTTT
*
26434896 CTTT-TTCTTCTCCATTTT
1 CTTTCTTCTTCCCCATTTT
26434914 TACCTAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.05, C:0.32, G:0.00, T:0.62
Consensus pattern (19 bp):
CTTTCTTCTTCCCCATTTT
Found at i:26437084 original size:18 final size:18
Alignment explanation
Indices: 26437061--26437095 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
26437051 ATGCGAATAT
*
26437061 ATAAAAACAATAAATAAC
1 ATAAAAACAACAAATAAC
*
26437079 ATAAAAATAACAAATAA
1 ATAAAAACAACAAATAA
26437096 TTTATGAGAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.74, C:0.09, G:0.00, T:0.17
Consensus pattern (18 bp):
ATAAAAACAACAAATAAC
Found at i:26437196 original size:22 final size:21
Alignment explanation
Indices: 26437157--26437211 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 21
26437147 GACGCAAAAA
*
26437157 ATAAATAAACAAATTATA-ACAT
1 ATAAATAAA-ATATTATATA-AT
26437179 ATAAATAAAATATATATATAAT
1 ATAAATAAAATAT-TATATAAT
*
26437201 ATAATTAAAAT
1 ATAAATAAAAT
26437212 TAAATGAGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 3 0.10
22 25 0.86
23 1 0.03
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.33
Consensus pattern (21 bp):
ATAAATAAAATATTATATAAT
Found at i:26437458 original size:7 final size:7
Alignment explanation
Indices: 26437443--26437615 Score: 77
Period size: 7 Copynumber: 23.1 Consensus size: 7
26437433 AATTATACAT
26437443 AATAATA
1 AATAATA
*
26437450 AATAGTA
1 AATAATA
26437457 AATAATTA
1 AATAA-TA
*
26437465 TATAATA
1 AATAATA
*
26437472 TATAATA
1 AATAATA
*
26437479 TATAATA
1 AATAATA
*
26437486 AAAAATA
1 AATAATA
26437493 AA-AA-A
1 AATAATA
*
26437498 ATATAATG
1 A-ATAATA
26437506 AATAATA
1 AATAATA
26437513 TATATAATAA
1 -A-ATAAT-A
*
26437523 AATGATA
1 AATAATA
*
26437530 TATAATAA
1 AATAAT-A
*
26437538 AATGTATA
1 AAT-AATA
26437546 AATCAAAATA
1 AAT---AATA
*
26437556 TATAATA
1 AATAATA
26437563 AA-ATATA
1 AATA-ATA
26437570 AATAATA
1 AATAATA
26437577 TAATAAATA
1 -AAT-AATA
26437586 ATATAA-A
1 A-ATAATA
26437593 AATAA-A
1 AATAATA
26437599 AATAATA
1 AATAATA
26437606 TATATAATA
1 -A-ATAATA
26437615 A
1 A
26437616 TTTTTACATT
Statistics
Matches: 131, Mismatches: 16, Indels: 37
0.71 0.09 0.20
Matches are distributed among these distances:
5 2 0.02
6 14 0.11
7 61 0.47
8 28 0.21
9 20 0.15
10 6 0.05
ACGTcount: A:0.65, C:0.01, G:0.02, T:0.32
Consensus pattern (7 bp):
AATAATA
Found at i:26437476 original size:29 final size:28
Alignment explanation
Indices: 26437436--26437614 Score: 93
Period size: 29 Copynumber: 6.2 Consensus size: 28
26437426 ATTTTAAAAT
26437436 TATACATA-ATAATAAATAGTAAATAATTA
1 TATA-ATATATAATAAATA-TAAATAATTA
* * *
26437465 TATAATATATAATATATAATAAAAAATAA
1 TATAATATATAATAAAT-ATAAATAATTA
* * * *
26437494 AAAAATATAATGAAT-AATATATATAATAA
1 TATAATAT-AT-AATAAATATAAATAATTA
* * **
26437523 AATGATATATAATAAA-ATGTATAA--A
1 TATAATATATAATAAATATAAATAATTA
*
26437548 TCAAAATATATAATAAAATATAAATAA-TA
1 T-ATAATATATAAT-AAATATAAATAATTA
*
26437577 TAATAAATAATATAA-AAATAAAAATAATATA
1 T-AT-AAT-ATATAATAAATATAAATAAT-TA
26437608 TATAATA
1 TATAATA
26437615 ATTTTTACAT
Statistics
Matches: 118, Mismatches: 19, Indels: 27
0.72 0.12 0.16
Matches are distributed among these distances:
25 1 0.01
26 10 0.08
27 13 0.11
28 14 0.12
29 58 0.49
30 10 0.08
31 12 0.10
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.32
Consensus pattern (28 bp):
TATAATATATAATAAATATAAATAATTA
Found at i:26437514 original size:12 final size:11
Alignment explanation
Indices: 26437436--26437616 Score: 102
Period size: 12 Copynumber: 16.8 Consensus size: 11
26437426 ATTTTAAAAT
26437436 TATACATAATAA
1 TATA-ATAATAA
*
26437448 TA-AATAGTAA
1 TATAATAATAA
26437458 -ATAATTATATAA
1 TATAA-TA-ATAA
26437470 TAT-ATAAT-A
1 TATAATAATAA
26437479 TATAATAA-AA
1 TATAATAATAA
* *
26437489 AATAA-AAAAA
1 TATAATAATAA
26437499 TATAATGAATAA
1 TATAAT-AATAA
26437511 TATATATAATAA
1 TATA-ATAATAA
* *
26437523 AATGATATATAA
1 TATAATA-ATAA
* *
26437535 TAAAATGTATAA
1 TATAAT-AATAA
26437547 -ATCAA-AAT-A
1 TAT-AATAATAA
26437556 TATAATAA-AA
1 TATAATAATAA
26437566 TAT-A-AATAA
1 TATAATAATAA
26437575 TATAATAAATAA
1 TATAAT-AATAA
*
26437587 TATAAAAATAA
1 TATAATAATAA
26437598 -A-AATAATATA
1 TATAATAATA-A
26437608 TATAATAAT
1 TATAATAAT
26437617 TTTTACATTC
Statistics
Matches: 131, Mismatches: 15, Indels: 46
0.68 0.08 0.24
Matches are distributed among these distances:
8 2 0.02
9 22 0.17
10 38 0.29
11 15 0.11
12 50 0.38
13 4 0.03
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.33
Consensus pattern (11 bp):
TATAATAATAA
Found at i:26437569 original size:36 final size:36
Alignment explanation
Indices: 26437444--26437603 Score: 116
Period size: 36 Copynumber: 4.4 Consensus size: 36
26437434 ATTATACATA
* * *
26437444 ATAAT-AAATAGTAAATAATTAT-ATAATATATAATAT
1 ATAATAAAATA-TAAAAAAATATAATAA-ATAAAATAT
* * *
26437480 ATAATAAAAAATAAAAAAATATAATGAATAATATAT
1 ATAATAAAATATAAAAAAATATAATAAATAAAATAT
*
26437516 ATAATAAAATGATATATAATAAA-ATGTATAAATCAAAATAT
1 ATAATAAAAT-ATA-A-AA-AAATAT-AATAAAT-AAAATAT
* *
26437557 ATAATAAAATAT-AAATAATATAATAAATAATATA-
1 ATAATAAAATATAAAAAAATATAATAAATAAAATAT
*
26437591 AAAATAAAA-ATAA
1 ATAATAAAATATAA
26437604 TATATATAAT
Statistics
Matches: 100, Mismatches: 14, Indels: 22
0.74 0.10 0.16
Matches are distributed among these distances:
33 2 0.02
34 9 0.09
35 5 0.05
36 38 0.38
37 14 0.14
38 2 0.02
39 4 0.04
40 10 0.10
41 16 0.16
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.31
Consensus pattern (36 bp):
ATAATAAAATATAAAAAAATATAATAAATAAAATAT
Found at i:26437695 original size:25 final size:25
Alignment explanation
Indices: 26437646--26437699 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
26437636 ATTTACAGTA
*
26437646 AAAATAAATAAAATATATAATATTT
1 AAAATAAATAAAATATATAAAATTT
*
26437671 AAAATAAATAAATTATA-ACAAATTT
1 AAAATAAATAAAATATATA-AAATTT
26437696 AAAA
1 AAAA
26437700 AGGATTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 1 0.04
25 25 0.96
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (25 bp):
AAAATAAATAAAATATATAAAATTT
Found at i:26460239 original size:6 final size:6
Alignment explanation
Indices: 26460228--26461029 Score: 1604
Period size: 6 Copynumber: 133.7 Consensus size: 6
26460218 TGATTAATAT
26460228 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
26460276 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
26460324 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
26460372 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
26460420 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
26460468 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
26460516 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
26460564 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
26460612 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
26460660 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
26460708 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
26460756 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
26460804 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
26460852 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
26460900 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
26460948 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
26460996 ATATAC ATATAC ATATAC ATATAC ATATAC ATAT
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATAT
26461030 GTGTGTATGT
Statistics
Matches: 796, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 796 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (6 bp):
ATATAC
Found at i:26462283 original size:44 final size:45
Alignment explanation
Indices: 26462218--26462308 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
26462208 ACCTCTATTC
* * *
26462218 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
26462262 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
26462307 CA
1 CA
26462309 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:26462310 original size:16 final size:16
Alignment explanation
Indices: 26462289--26462357 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
26462279 GATTAGCTAT
26462289 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
26462305 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
26462322 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
26462338 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
26462354 TACA
1 TACA
26462358 GCGAACCAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:26462331 original size:33 final size:32
Alignment explanation
Indices: 26462289--26462357 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
26462279 GATTAGCTAT
26462289 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
26462322 TACACCTCTAATCCAATACACCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
26462354 TACA
1 TACA
26462358 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 8 0.22
33 28 0.78
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:26463295 original size:24 final size:24
Alignment explanation
Indices: 26463268--26463319 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
26463258 CTAGTGGGTC
* *
26463268 AAATAAATTATGCTAATAAATGCT
1 AAATAAATTATACTAATAAATACT
*
26463292 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACT
26463316 AAAT
1 AAAT
26463320 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.54, C:0.08, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:26465451 original size:25 final size:25
Alignment explanation
Indices: 26465417--26465468 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
26465407 AAAATTGTTG
26465417 AACCCATGAATGCATTCATCTATCA
1 AACCCATGAATGCATTCATCTATCA
26465442 AACCCATGAATGCATTCATCTATCA
1 AACCCATGAATGCATTCATCTATCA
26465467 AA
1 AA
26465469 TTTCTAAAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.38, C:0.27, G:0.08, T:0.27
Consensus pattern (25 bp):
AACCCATGAATGCATTCATCTATCA
Found at i:26469554 original size:18 final size:18
Alignment explanation
Indices: 26469528--26469594 Score: 53
Period size: 18 Copynumber: 3.5 Consensus size: 18
26469518 TCTAAGGTAT
26469528 AAATATAAACTCTATGAA
1 AAATATAAACTCTATGAA
* * * *
26469546 AAATCTAAAATATTCTAAGTAT
1 AAA--TATAA-ACTCTATG-AA
26469568 AAATATAAACTCTATGAA
1 AAATATAAACTCTATGAA
*
26469586 AAATCTAAA
1 AAATATAAA
26469595 ATATCCTTCT
Statistics
Matches: 36, Mismatches: 9, Indels: 8
0.68 0.17 0.15
Matches are distributed among these distances:
18 12 0.33
19 6 0.17
20 8 0.22
21 6 0.17
22 4 0.11
ACGTcount: A:0.55, C:0.10, G:0.04, T:0.30
Consensus pattern (18 bp):
AAATATAAACTCTATGAA
Found at i:26469572 original size:40 final size:41
Alignment explanation
Indices: 26469516--26469598 Score: 159
Period size: 40 Copynumber: 2.0 Consensus size: 41
26469506 ATAATTTTAA
26469516 ATTCTAAGGTATAAATATAAACTCTATGAAAAATCTAAAAT
1 ATTCTAAGGTATAAATATAAACTCTATGAAAAATCTAAAAT
26469557 ATTCTAA-GTATAAATATAAACTCTATGAAAAATCTAAAAT
1 ATTCTAAGGTATAAATATAAACTCTATGAAAAATCTAAAAT
26469597 AT
1 AT
26469599 CCTTCTTATG
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 35 0.83
41 7 0.17
ACGTcount: A:0.52, C:0.10, G:0.06, T:0.33
Consensus pattern (41 bp):
ATTCTAAGGTATAAATATAAACTCTATGAAAAATCTAAAAT
Found at i:26474831 original size:19 final size:19
Alignment explanation
Indices: 26474806--26474896 Score: 125
Period size: 19 Copynumber: 4.9 Consensus size: 19
26474796 ATAATCTTCA
*
26474806 ATGATATGTAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
26474825 GTGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
26474844 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
26474861 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
* *
26474879 ATGATATACAATCGTAGA
1 ATGATATGCAATCTTAGA
26474897 AGATATGATT
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
17 16 0.25
18 16 0.25
19 32 0.50
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:26474855 original size:17 final size:17
Alignment explanation
Indices: 26474815--26474884 Score: 95
Period size: 17 Copynumber: 3.9 Consensus size: 17
26474805 AATGATATGT
*
26474815 AATCTTAGATGTGATATGC
1 AATCTTAGATATGATA--C
26474834 AATCTTAGATATGATAC
1 AATCTTAGATATGATAC
*
26474851 AATCTTAGATATGATTGC
1 AATCTTAGATATGA-TAC
26474869 AATCTTAGATATGATA
1 AATCTTAGATATGATA
26474885 TACAATCGTA
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
17 16 0.34
18 16 0.34
19 15 0.32
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (17 bp):
AATCTTAGATATGATAC
Found at i:26474873 original size:18 final size:18
Alignment explanation
Indices: 26474815--26474883 Score: 104
Period size: 18 Copynumber: 3.8 Consensus size: 18
26474805 AATGATATGT
*
26474815 AATCTTAGATGTGATATGC
1 AATCTTAGATATGAT-TGC
*
26474834 AATCTTAGATATGA-TAC
1 AATCTTAGATATGATTGC
26474851 AATCTTAGATATGATTGC
1 AATCTTAGATATGATTGC
26474869 AATCTTAGATATGAT
1 AATCTTAGATATGAT
26474884 ATACAATCGT
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
17 16 0.35
18 17 0.37
19 13 0.28
ACGTcount: A:0.36, C:0.10, G:0.16, T:0.38
Consensus pattern (18 bp):
AATCTTAGATATGATTGC
Found at i:26474875 original size:35 final size:36
Alignment explanation
Indices: 26474815--26474884 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 36
26474805 AATGATATGT
*
26474815 AATCTTAGATGTGATATGCAATCTTAGATATGATAC
1 AATCTTAGATATGATATGCAATCTTAGATATGATAC
26474851 AATCTTAGATATGAT-TGCAATCTTAGATATGATA
1 AATCTTAGATATGATATGCAATCTTAGATATGATA
26474885 TACAATCGTA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 19 0.58
36 14 0.42
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (36 bp):
AATCTTAGATATGATATGCAATCTTAGATATGATAC
Found at i:26475423 original size:30 final size:30
Alignment explanation
Indices: 26475387--26475448 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
26475377 ATTTTTTATT
26475387 TTTTTTATAAT-TATTATTATTATAAATATA
1 TTTTTTATAATATATTA-TATTATAAATATA
* * *
26475417 TTTTTTATTATATATTATATTTTAAATTTA
1 TTTTTTATAATATATTATATTATAAATATA
26475447 TT
1 TT
26475449 ATTAAATATC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 23 0.82
31 5 0.18
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (30 bp):
TTTTTTATAATATATTATATTATAAATATA
Found at i:26475426 original size:18 final size:18
Alignment explanation
Indices: 26475383--26475439 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
26475373 ATATATTTTT
26475383 TATTTTTT-TTAT-AAT-
1 TATTTTTTATTATAAATA
*
26475398 TA-TTATTATTATAAATA
1 TATTTTTTATTATAAATA
*
26475415 TATTTTTTATTATATATTA
1 TATTTTTTATTATA-AATA
26475434 TATTTT
1 TATTTT
26475440 AAATTTATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
14 4 0.12
15 6 0.18
16 3 0.09
17 2 0.06
18 10 0.29
19 9 0.26
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TATTTTTTATTATAAATA
Found at i:26475464 original size:26 final size:26
Alignment explanation
Indices: 26475416--26475465 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
26475406 TTATAAATAT
* * * *
26475416 ATTTTTTATTATATATTATATTTTAA
1 ATTTATTATTAAATATCACATTTTAA
26475442 ATTTATTATTAAATATCACATTTT
1 ATTTATTATTAAATATCACATTTT
26475466 TTATATGCTC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (26 bp):
ATTTATTATTAAATATCACATTTTAA
Found at i:26478926 original size:43 final size:43
Alignment explanation
Indices: 26478878--26478962 Score: 161
Period size: 43 Copynumber: 2.0 Consensus size: 43
26478868 TTTTTAGGAA
26478878 AAGTGATTAATTTTGGAAAATACTTTCATTGCGGAAGCTTTGT
1 AAGTGATTAATTTTGGAAAATACTTTCATTGCGGAAGCTTTGT
*
26478921 AAGTGATTAATTTTGGAAAATACTTTCATTGCGGAAGTTTTG
1 AAGTGATTAATTTTGGAAAATACTTTCATTGCGGAAGCTTTG
26478963 CTTGTTGTCG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (43 bp):
AAGTGATTAATTTTGGAAAATACTTTCATTGCGGAAGCTTTGT
Found at i:26481299 original size:26 final size:26
Alignment explanation
Indices: 26481268--26481323 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
26481258 TGAAATTCCC
*
26481268 ATCATGGAACATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
26481294 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
26481320 ATCA
1 ATCA
26481324 ATTTGTATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:26482880 original size:33 final size:32
Alignment explanation
Indices: 26482838--26482903 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 32
26482828 TGTCAGACAT
26482838 TTCCCTACAAACTCCGTTACTTCTCGTTTAAG
1 TTCCCTACAAACTCCGTTACTTCTCGTTTAAG
* *
26482870 NTTCCCTACAAATTCTGTTACTTCTCGTTTAAG
1 -TTCCCTACAAACTCCGTTACTTCTCGTTTAAG
26482903 T
1 T
26482904 CCAGGCCACC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 1 0.03
33 30 0.97
ACGTcount: A:0.21, C:0.27, G:0.09, T:0.41
Consensus pattern (32 bp):
TTCCCTACAAACTCCGTTACTTCTCGTTTAAG
Found at i:26486386 original size:45 final size:45
Alignment explanation
Indices: 26486322--26486410 Score: 169
Period size: 45 Copynumber: 2.0 Consensus size: 45
26486312 TCACAGCTCC
*
26486322 AAGCCCACTATGGTTGGGGATTTCCTGCGTGGATGAAAATAAAAG
1 AAGCCCACTATGGTTGGGGATTTCCTGCGTAGATGAAAATAAAAG
26486367 AAGCCCACTATGGTTGGGGATTTCCTGCGTAGATGAAAATAAAA
1 AAGCCCACTATGGTTGGGGATTTCCTGCGTAGATGAAAATAAAA
26486411 TGGGTGAGTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.33, C:0.16, G:0.27, T:0.25
Consensus pattern (45 bp):
AAGCCCACTATGGTTGGGGATTTCCTGCGTAGATGAAAATAAAAG
Found at i:26502074 original size:28 final size:29
Alignment explanation
Indices: 26502040--26502105 Score: 73
Period size: 28 Copynumber: 2.3 Consensus size: 29
26502030 TAATAGTTTT
*
26502040 TATTTTTATAAT-TTTTAAAGAGTTAAATA
1 TATTTTTATAATATTTTAAAG-GTAAAATA
* *
26502069 -ATTTTTTTATTATTTTAAAGGTAAAATA
1 TATTTTTATAATATTTTAAAGGTAAAATA
*
26502097 TAATTTTAT
1 TATTTTTAT
26502106 CATTACTAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
28 16 0.53
29 14 0.47
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (29 bp):
TATTTTTATAATATTTTAAAGGTAAAATA
Found at i:26502103 original size:29 final size:30
Alignment explanation
Indices: 26502042--26502103 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 30
26502032 ATAGTTTTTA
* *
26502042 TTTTTATAATTTTTAAAGAGTTAAATAATT
1 TTTTTATAATTTTTAAAGAGTAAAATAAAT
*
26502072 TTTTTATTA-TTTTAAAG-GTAAAATATAAT
1 TTTTTATAATTTTTAAAGAGTAAAATA-AAT
26502101 TTT
1 TTT
26502104 ATCATTACTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 7 0.25
29 13 0.46
30 8 0.29
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (30 bp):
TTTTTATAATTTTTAAAGAGTAAAATAAAT
Found at i:26504038 original size:25 final size:24
Alignment explanation
Indices: 26503993--26504042 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 24
26503983 ACGTATTTTC
26503993 TCAAAATTTTACCATGGATAAAATA
1 TCAAAATTTTA-CATGGATAAAATA
26504018 TCAAAATTTTA-ATGGGTATAAAATA
1 TCAAAATTTTACAT-GG-ATAAAATA
26504043 GGAATGAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 2 0.09
24 2 0.09
25 19 0.83
ACGTcount: A:0.48, C:0.08, G:0.10, T:0.34
Consensus pattern (24 bp):
TCAAAATTTTACATGGATAAAATA
Found at i:26506517 original size:25 final size:25
Alignment explanation
Indices: 26506489--26506580 Score: 96
Period size: 25 Copynumber: 3.7 Consensus size: 25
26506479 CGATAATCGG
*
26506489 TAAGCTCCTCCGAGCTGAATAACGA
1 TAAGCTCATCCGAGCTGAATAACGA
** * *
26506514 TAAGCTCATGTGAGCTGAATATCGG
1 TAAGCTCATCCGAGCTGAATAACGA
* *
26506539 TAAGCTTC-TCCAAGCTGGATAACGA
1 TAAGC-TCATCCGAGCTGAATAACGA
*
26506564 TAAGCTCATGCGAGCTG
1 TAAGCTCATCCGAGCTG
26506581 TGGTGAGTCC
Statistics
Matches: 52, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
24 2 0.04
25 48 0.92
26 2 0.04
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.24
Consensus pattern (25 bp):
TAAGCTCATCCGAGCTGAATAACGA
Found at i:26506542 original size:50 final size:50
Alignment explanation
Indices: 26506484--26506580 Score: 158
Period size: 50 Copynumber: 1.9 Consensus size: 50
26506474 ACAAGCGATA
* *
26506484 ATCGGTAAGCTCCTCCGAGCTGAATAACGATAAGCTCATGTGAGCTGAAT
1 ATCGGTAAGCTCCTCCAAGCTGAATAACGATAAGCTCATGCGAGCTGAAT
* *
26506534 ATCGGTAAGCTTCTCCAAGCTGGATAACGATAAGCTCATGCGAGCTG
1 ATCGGTAAGCTCCTCCAAGCTGAATAACGATAAGCTCATGCGAGCTG
26506581 TGGTGAGTCC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.24
Consensus pattern (50 bp):
ATCGGTAAGCTCCTCCAAGCTGAATAACGATAAGCTCATGCGAGCTGAAT
Found at i:26516109 original size:19 final size:19
Alignment explanation
Indices: 26516071--26516109 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
26516061 AATTTTAAGT
*
26516071 AGAAGAAAATAAGGAGAGA
1 AGAAGAAAATAAAGAGAGA
26516090 AGAAGAAAATCAAAGA-AGA
1 AGAAGAAAAT-AAAGAGAGA
26516109 A
1 A
26516110 AAAACATAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.67, C:0.03, G:0.26, T:0.05
Consensus pattern (19 bp):
AGAAGAAAATAAAGAGAGA
Found at i:26525085 original size:20 final size:20
Alignment explanation
Indices: 26525060--26525109 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
26525050 GGGCACACGT
* *
26525060 CCGTGTGGCCTGGGACATGG
1 CCGTGTGGCCTAGAACATGG
26525080 CCGTGTGGCCTAGAACATGG
1 CCGTGTGGCCTAGAACATGG
26525100 CCGTGTGGCC
1 CCGTGTGGCC
26525110 AGGCCATGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.12, C:0.28, G:0.40, T:0.20
Consensus pattern (20 bp):
CCGTGTGGCCTAGAACATGG
Found at i:26538791 original size:17 final size:16
Alignment explanation
Indices: 26538750--26538790 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
26538740 TTCTGTCCTT
26538750 TATTTTATA-ACAATA
1 TATTTTATATACAATA
* *
26538765 TATATTATATATAATA
1 TATTTTATATACAATA
26538781 TATTTT-TATA
1 TATTTTATATA
26538791 TTAGGAATGT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (16 bp):
TATTTTATATACAATA
Found at i:26543758 original size:22 final size:21
Alignment explanation
Indices: 26543734--26543817 Score: 50
Period size: 21 Copynumber: 3.8 Consensus size: 21
26543724 TTTGAAATAT
26543734 ATATTTGAAATA-TTTTATTAATA
1 ATATTT-AAATACTTTTATT-A-A
26543757 TATATTTTGAAATTACTTTT-TTAA
1 -ATA-TTT-AAA-TACTTTTATTAA
* *
26543781 AT-TTTAAATATTATTTTTTAA
1 ATATTTAAATACT-TTTATTAA
26543802 ATATTTAAATA-TTTTA
1 ATATTTAAATACTTTTA
26543818 AACTTTCAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 16
0.74 0.03 0.23
Matches are distributed among these distances:
19 3 0.06
20 9 0.17
21 10 0.19
22 8 0.15
23 2 0.04
24 4 0.08
25 8 0.15
26 4 0.08
27 4 0.08
ACGTcount: A:0.39, C:0.01, G:0.02, T:0.57
Consensus pattern (21 bp):
ATATTTAAATACTTTTATTAA
Found at i:26543797 original size:21 final size:22
Alignment explanation
Indices: 26543760--26543814 Score: 78
Period size: 21 Copynumber: 2.5 Consensus size: 22
26543750 ATTAATATAT
*
26543760 ATTTTGAA-ATTACTTTTTTAA
1 ATTTTAAATATTACTTTTTTAA
26543781 ATTTTAAATATTA-TTTTTTAA
1 ATTTTAAATATTACTTTTTTAA
26543802 ATATTTAAATATT
1 AT-TTTAAATATT
26543815 TTAAACTTTC
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
21 17 0.55
22 14 0.45
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (22 bp):
ATTTTAAATATTACTTTTTTAA
Found at i:26544135 original size:16 final size:16
Alignment explanation
Indices: 26544114--26544147 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
26544104 TCTTTCACTT
*
26544114 TTTTTTTACTTATTTA
1 TTTTTTTAATTATTTA
*
26544130 TTTTTTTAATTTTTTA
1 TTTTTTTAATTATTTA
26544146 TT
1 TT
26544148 ATCTTTTGTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTTTTAATTATTTA
Found at i:26544183 original size:18 final size:18
Alignment explanation
Indices: 26544162--26544196 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
26544152 TTTGTCTTTT
*
26544162 TTTTAAATTTTTTTTAAG
1 TTTTAAATTTTTCTTAAG
*
26544180 TTTTATATTTTTCTTAA
1 TTTTAAATTTTTCTTAA
26544197 TTTATTTTGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.69
Consensus pattern (18 bp):
TTTTAAATTTTTCTTAAG
Found at i:26544190 original size:28 final size:27
Alignment explanation
Indices: 26544112--26544204 Score: 80
Period size: 28 Copynumber: 3.3 Consensus size: 27
26544102 CATCTTTCAC
*
26544112 TTTTTTTTTACTTATT-TATTTTTTTAA
1 TTTTTTTTAACTT-TTATATTTTTTTAA
* * *
26544139 TTTTTTATTATCTTTTGTCTTTTTTTTAAA
1 TTTTTT-TTAACTTTTAT-ATTTTTTT-AA
*
26544169 TTTTTTTTAAGTTTTATATTTTTCTTAA
1 TTTTTTTTAACTTTTATATTTTT-TTAA
*
26544197 TTTATTTT
1 TTTTTTTT
26544205 GTTTAATTAT
Statistics
Matches: 53, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
27 8 0.15
28 20 0.38
29 17 0.32
30 8 0.15
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.75
Consensus pattern (27 bp):
TTTTTTTTAACTTTTATATTTTTTTAA
Found at i:26544190 original size:29 final size:28
Alignment explanation
Indices: 26544112--26544204 Score: 82
Period size: 29 Copynumber: 3.3 Consensus size: 28
26544102 CATCTTTCAC
*
26544112 TTTTTTTTTACTTATT-TA-TTTTTTTAA
1 TTTTTTTTAACTT-TTATATTTTTTTTAA
* * *
26544139 TTTTTTATTATCTTTTGTCTTTTTTTTAAA
1 TTTTTT-TTAACTTTTATATTTTTTTT-AA
* *
26544169 TTTTTTTTAAGTTTTATATTTTTCTTAA
1 TTTTTTTTAACTTTTATATTTTTTTTAA
*
26544197 TTTATTTT
1 TTTTTTTT
26544205 GTTTAATTAT
Statistics
Matches: 53, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
27 8 0.15
28 15 0.28
29 22 0.42
30 8 0.15
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.75
Consensus pattern (28 bp):
TTTTTTTTAACTTTTATATTTTTTTTAA
Found at i:26544452 original size:16 final size:17
Alignment explanation
Indices: 26544419--26544454 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
26544409 TTCTTTATCA
*
26544419 TTATTTATTTATTTATT
1 TTATTTATTTATTAATT
26544436 TTATTTA-TTATTAATT
1 TTATTTATTTATTAATT
26544452 TTA
1 TTA
26544455 AAAAACTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
TTATTTATTTATTAATT
Found at i:26544532 original size:24 final size:25
Alignment explanation
Indices: 26544469--26544532 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 25
26544459 ACTTGAAATG
26544469 TATATTTGAAATGT-TTTATAATATA
1 TATATTTGAAAT-TATTTATAATATA
*
26544494 TAT-TTATTAAA--ATTTA-AATATA
1 TATATT-TGAAATTATTTATAATATA
26544516 TATATTTGAAATTATTT
1 TATATTTGAAATTATTT
26544533 TTCTAAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 11
0.71 0.04 0.24
Matches are distributed among these distances:
22 13 0.41
23 6 0.19
24 6 0.19
25 7 0.22
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (25 bp):
TATATTTGAAATTATTTATAATATA
Found at i:26544547 original size:20 final size:20
Alignment explanation
Indices: 26544519--26544560 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
26544509 AAATATATAT
26544519 ATTTGAAATTATT-TTTCTAA
1 ATTTGAAA-TATTATTTCTAA
* *
26544539 ATTTTAAATATTATTTTTAA
1 ATTTGAAATATTATTTCTAA
26544559 AT
1 AT
26544561 CATTGTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (20 bp):
ATTTGAAATATTATTTCTAA
Found at i:26544589 original size:33 final size:33
Alignment explanation
Indices: 26544500--26544593 Score: 118
Period size: 33 Copynumber: 2.8 Consensus size: 33
26544490 TATATATTTA
* * * *
26544500 TTAAAATTTAAATATATATATTTGAAATTATTTT
1 TTAAAATTTAAATAT-TATTTTTTAAATCATTGT
*
26544534 TCTAAATTTTAAATATTA-TTTTTAAATCATTGT
1 T-TAAAATTTAAATATTATTTTTTAAATCATTGT
26544567 TTAAAATTTAAATATTATTTTTTAAAT
1 TTAAAATTTAAATATTATTTTTTAAAT
26544594 ATTAGATATA
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
32 15 0.29
33 21 0.40
34 3 0.06
35 13 0.25
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (33 bp):
TTAAAATTTAAATATTATTTTTTAAATCATTGT
Found at i:26544592 original size:14 final size:14
Alignment explanation
Indices: 26544540--26544597 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
26544530 TTTTTCTAAA
26544540 TTTTAAATATTA-T
1 TTTTAAATATTATT
*
26544553 TTTTAAATCATTGTT
1 TTTTAAAT-ATTATT
26544568 TAAAATTTAAATATTATT
1 T----TTTAAATATTATT
26544586 TTTTAAATATTA
1 TTTTAAATATTA
26544598 GATATATTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 11
0.74 0.04 0.22
Matches are distributed among these distances:
13 8 0.22
14 14 0.38
15 2 0.05
18 6 0.16
19 7 0.19
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (14 bp):
TTTTAAATATTATT
Found at i:26544615 original size:21 final size:21
Alignment explanation
Indices: 26544566--26544616 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
26544556 TAAATCATTG
26544566 TTTAAAAT-TTAAATATTATT
1 TTTAAAATATTAAATATTATT
* *
26544586 TTTTAAATATTAGATA-TATT
1 TTTAAAATATTAAATATTATT
26544606 TTTAATAATAT
1 TTTAA-AATAT
26544617 AAAACATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 15 0.58
21 11 0.42
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (21 bp):
TTTAAAATATTAAATATTATT
Found at i:26544726 original size:14 final size:14
Alignment explanation
Indices: 26544707--26544748 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
26544697 GTTTTATAAT
26544707 TTTTTTAATTATGA
1 TTTTTTAATTATGA
26544721 TTTTTTAA-T-T-A
1 TTTTTTAATTATGA
26544732 -TTTTTAATTATGA
1 TTTTTTAATTATGA
26544745 TTTT
1 TTTT
26544749 GAAATTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
10 7 0.29
11 2 0.08
12 2 0.08
13 2 0.08
14 11 0.46
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (14 bp):
TTTTTTAATTATGA
Found at i:26544735 original size:24 final size:24
Alignment explanation
Indices: 26544654--26544758 Score: 107
Period size: 24 Copynumber: 4.5 Consensus size: 24
26544644 ACTTTTCAAA
* *
26544654 TTTATTATTATTTTT-ATAAT-AT
1 TTTATAATTATTTTTAATTATGAT
26544676 TTTA-AATGTATATTTTAATT-TG-T
1 TTTATAAT-TAT-TTTTAATTATGAT
26544699 TTTATAATT-TTTTTAATTATGAT
1 TTTATAATTATTTTTAATTATGAT
*
26544722 TTTTTAATTATTTTTAATTATGAT
1 TTTATAATTATTTTTAATTATGAT
26544746 TTTGA-AATTATTT
1 TTT-ATAATTATTT
26544759 AAAATATATT
Statistics
Matches: 70, Mismatches: 4, Indels: 16
0.78 0.04 0.18
Matches are distributed among these distances:
21 10 0.14
22 10 0.14
23 20 0.29
24 30 0.43
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (24 bp):
TTTATAATTATTTTTAATTATGAT
Found at i:26544815 original size:18 final size:19
Alignment explanation
Indices: 26544794--26544837 Score: 63
Period size: 18 Copynumber: 2.3 Consensus size: 19
26544784 ACATTTTAAA
26544794 TTTATATTTTAAATAT-TT
1 TTTATATTTTAAATATATT
*
26544812 TTTAAATTTTAAATATAATT
1 TTTATATTTTAAATAT-ATT
26544832 TTTATA
1 TTTATA
26544838 AATTATTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 15 0.68
20 7 0.32
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTATATTTTAAATATATT
Found at i:26544823 original size:31 final size:27
Alignment explanation
Indices: 26544786--26544873 Score: 79
Period size: 31 Copynumber: 3.0 Consensus size: 27
26544776 AAGATATGAC
*
26544786 ATTTTAAATTTATATTTTAAATATTTTTTAA
1 ATTTTAAATTTA-ATTTTAAA-A-TTATT-A
*
26544817 ATTTTAAATATAATTTTTATAAATTATTA
1 ATTTTAAATTTAA-TTTTA-AAATTATTA
*
26544846 ATTTTAAAATTAATTTTAAAGA-TATTA
1 ATTTTAAATTTAATTTTAAA-ATTATTA
26544873 A
1 A
26544874 AATGTTTTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
27 8 0.16
28 6 0.12
29 12 0.24
30 5 0.10
31 17 0.34
32 2 0.04
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (27 bp):
ATTTTAAATTTAATTTTAAAATTATTA
Found at i:26544833 original size:12 final size:13
Alignment explanation
Indices: 26544786--26544865 Score: 50
Period size: 12 Copynumber: 6.6 Consensus size: 13
26544776 AAGATATGAC
26544786 ATTTTAAAT-TTA
1 ATTTTAAATATTA
26544798 TATTTTAAATATT-
1 -ATTTTAAATATTA
*
26544811 -TTTTAAATTTTA
1 ATTTTAAATATTA
* *
26544823 AATAT-AAT-TT-
1 ATTTTAAATATTA
*
26544833 -TTATAAATTATTA
1 ATTTTAAA-TATTA
26544846 ATTTTAAA-ATTA
1 ATTTTAAATATTA
26544858 ATTTTAAA
1 ATTTTAAA
26544866 GATATTAAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 17
0.71 0.07 0.22
Matches are distributed among these distances:
9 3 0.06
10 2 0.04
11 13 0.24
12 17 0.31
13 11 0.20
14 8 0.15
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
ATTTTAAATATTA
Found at i:26545001 original size:18 final size:18
Alignment explanation
Indices: 26544975--26545009 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
26544965 ACAAAATAAA
*
26544975 TTAAGAAAAATATAAAAC
1 TTAAAAAAAATATAAAAC
*
26544993 TTAAAAAAAATTTAAAA
1 TTAAAAAAAATATAAAA
26545010 AAAAGACAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.26
Consensus pattern (18 bp):
TTAAAAAAAATATAAAAC
Found at i:26545011 original size:28 final size:27
Alignment explanation
Indices: 26544967--26545043 Score: 73
Period size: 29 Copynumber: 2.7 Consensus size: 27
26544957 ATAATTAAAC
* * *
26544967 AAAATAAATTAAGAAAAATATAAAACTT
1 AAAAAAAATTAA-AAAAATACAAAACAT
* *
26544995 AAAAAAAATTTAAAAAAAAGACAAAAGAT
1 AAAAAAAA-TT-AAAAAAATACAAAACAT
26545024 AATAAAAAATTAAAAAAATA
1 AA-AAAAAATTAAAAAAATA
26545044 AATAAGTAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
28 15 0.38
29 17 0.43
30 8 0.20
ACGTcount: A:0.74, C:0.03, G:0.04, T:0.19
Consensus pattern (27 bp):
AAAAAAAATTAAAAAAATACAAAACAT
Found at i:26545045 original size:16 final size:16
Alignment explanation
Indices: 26545024--26545057 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
26545014 GACAAAAGAT
*
26545024 AATAAAAAATTAAAAA
1 AATAAAAAAGTAAAAA
*
26545040 AATAAATAAGTAAAAA
1 AATAAAAAAGTAAAAA
26545056 AA
1 AA
26545058 AAGTGAAAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (16 bp):
AATAAAAAAGTAAAAA
Found at i:26545059 original size:29 final size:30
Alignment explanation
Indices: 26544942--26545059 Score: 70
Period size: 29 Copynumber: 4.1 Consensus size: 30
26544932 TAAATTTTTT
* *
26544942 AAAATT-AATAAATA-AATAATTAAACAAAA
1 AAAATTAAAAAAATAGAATAAGTAAA-AAAA
* * * *
26544971 TAAATTAAGAAAAATATAA-AACT-TAAAAA
1 AAAATTAA-AAAAATAGAATAAGTAAAAAAA
* * * *
26545000 AAATTTAAAAAAA-AGACAAAAG-ATAATAA
1 AAAATTAAAAAAATAGA-ATAAGTAAAAAAA
26545029 AAAATTAAAAAAATA-AATAAGTAAAAAAA
1 AAAATTAAAAAAATAGAATAAGTAAAAAAA
26545058 AA
1 AA
26545060 GTGAAAGATG
Statistics
Matches: 68, Mismatches: 13, Indels: 16
0.70 0.13 0.16
Matches are distributed among these distances:
27 2 0.03
28 10 0.15
29 42 0.62
30 3 0.04
31 9 0.13
32 2 0.03
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.20
Consensus pattern (30 bp):
AAAATTAAAAAAATAGAATAAGTAAAAAAA
Found at i:26545327 original size:31 final size:28
Alignment explanation
Indices: 26545283--26545358 Score: 93
Period size: 31 Copynumber: 2.7 Consensus size: 28
26545273 TAAAAATCAT
26545283 AATTTAAAATATTATAAAACAAATTAAATA
1 AATTTAAAATATTATAAAACAAA-T-AATA
* *
26545313 ATATTTAAATTATTATAAAACTAATAATA
1 A-ATTTAAAATATTATAAAACAAATAATA
26545342 AATTTAAAAT-TT-TAAAA
1 AATTTAAAATATTATAAAA
26545359 TATTTAAATA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
26 5 0.12
27 2 0.05
28 8 0.19
29 5 0.12
30 2 0.05
31 20 0.48
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (28 bp):
AATTTAAAATATTATAAAACAAATAATA
Found at i:26545352 original size:45 final size:47
Alignment explanation
Indices: 26545306--26545404 Score: 123
Period size: 46 Copynumber: 2.1 Consensus size: 47
26545296 ATAAAACAAA
* * *
26545306 TTAAATAATATTTAAATTATTATAAAACTAATA-AT-AAATTTAAAAT
1 TTAAATAATATTTAAA-TAGTAAAAAAATAATATATAAAATTTAAAAT
* *
26545352 TTTAA-AATATTTAAATAGTAAAAAAATAATATTTAAAATTTAAAAT
1 TTAAATAATATTTAAATAGTAAAAAAATAATATATAAAATTTAAAAT
26545398 TTAAATA
1 TTAAATA
26545405 GGTAATTTCA
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
44 13 0.30
45 11 0.25
46 19 0.43
47 1 0.02
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (47 bp):
TTAAATAATATTTAAATAGTAAAAAAATAATATATAAAATTTAAAAT
Found at i:26545489 original size:10 final size:9
Alignment explanation
Indices: 26545467--26545501 Score: 52
Period size: 10 Copynumber: 3.7 Consensus size: 9
26545457 TTTTAAAGTT
26545467 AATAATAATA
1 AATAA-AATA
26545477 AATAAAATAA
1 AATAAAAT-A
26545487 AATAAAATA
1 AATAAAATA
26545496 AATAAA
1 AATAAA
26545502 GAGAAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 10 0.42
10 14 0.58
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (9 bp):
AATAAAATA
Found at i:26547682 original size:37 final size:37
Alignment explanation
Indices: 26547632--26547708 Score: 145
Period size: 37 Copynumber: 2.1 Consensus size: 37
26547622 GTAGGGAGAT
*
26547632 TATTTGAGCTTGTTATGCTACATCTATTGAAGAAAAC
1 TATTTGAGCTTGTTACGCTACATCTATTGAAGAAAAC
26547669 TATTTGAGCTTGTTACGCTACATCTATTGAAGAAAAC
1 TATTTGAGCTTGTTACGCTACATCTATTGAAGAAAAC
26547706 TAT
1 TAT
26547709 CTCTACTGTC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (37 bp):
TATTTGAGCTTGTTACGCTACATCTATTGAAGAAAAC
Found at i:26548640 original size:82 final size:82
Alignment explanation
Indices: 26548503--26548673 Score: 279
Period size: 82 Copynumber: 2.1 Consensus size: 82
26548493 GAATCTCAAC
* * *
26548503 TATAAATAGGCCTAACCATTTTTTATTTGAATAATCCCATATTTATTATTCTCTACCTAAGGCAT
1 TATAAATAGGCCTAACCATTTCTCATTTGAATAATCCCACATTTATTATTCTCTACCTAAGGCAT
26548568 TGTTCTCTCTCCCTATT
66 TGTTCTCTCTCCCTATT
* * *
26548585 TATAAATAGGCCTAACCATTTCTCATTTGAATCATCCCGCATTTATTATTCTCTACCTAGGGCAT
1 TATAAATAGGCCTAACCATTTCTCATTTGAATAATCCCACATTTATTATTCTCTACCTAAGGCAT
26548650 TGTTCTCTCTCCCTATT
66 TGTTCTCTCTCCCTATT
*
26548667 TGTAAAT
1 TATAAAT
26548674 TTTCACTTGT
Statistics
Matches: 82, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
82 82 1.00
ACGTcount: A:0.26, C:0.23, G:0.09, T:0.42
Consensus pattern (82 bp):
TATAAATAGGCCTAACCATTTCTCATTTGAATAATCCCACATTTATTATTCTCTACCTAAGGCAT
TGTTCTCTCTCCCTATT
Found at i:26550021 original size:9 final size:9
Alignment explanation
Indices: 26549995--26550028 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
26549985 AAGTTTCTGT
*
26549995 TTTTTTTTG
1 TTTTTTTTC
26550004 TTTTCTTTTC
1 TTTT-TTTTC
26550014 TTTTTTTTC
1 TTTTTTTTC
26550023 TTTTTT
1 TTTTTT
26550029 ATGTAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.88
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:26550021 original size:14 final size:15
Alignment explanation
Indices: 26549994--26550026 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
26549984 TAAGTTTCTG
*
26549994 TTTTTTTTTGTTTTC
1 TTTTCTTTTGTTTTC
26550009 TTTTCTTTT-TTTTC
1 TTTTCTTTTGTTTTC
26550023 TTTT
1 TTTT
26550027 TTATGTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.88
Consensus pattern (15 bp):
TTTTCTTTTGTTTTC
Found at i:26550954 original size:15 final size:15
Alignment explanation
Indices: 26550934--26551121 Score: 75
Period size: 15 Copynumber: 11.9 Consensus size: 15
26550924 ACTAGTATAT
26550934 TTATTATTACTATTA
1 TTATTATTACTATTA
26550949 TTATTATTA-TATTTCCA
1 TTATTATTACTA-TT--A
* *
26550966 CATATT-TTCCTATTCA
1 -TTATTATTACTATT-A
*
26550982 TTACTATTACTATTTA
1 TTATTATTACTA-TTA
26550998 TCTAATTTCATTTATCTATT-
1 T-T-A-TT-A-TTA-CTATTA
*
26551018 TATATTTTTACTATTA
1 T-TATTATTACTATTA
* *
26551034 TTA-TATTTCTATGTG
1 TTATTATTACTAT-TA
* *
26551049 TT-GTATTTCTATTGA
1 TTATTATTACTATT-A
* *
26551064 TGT-TTATCATTATTA
1 T-TATTATTACTATTA
*
26551079 TTATTATTATTATTA
1 TTATTATTACTATTA
*
26551094 TTATTATTATTATTA
1 TTATTATTACTATTA
26551109 TTATT-TTACTATT
1 TTATTATTACTATT
26551122 TGTTTCTACT
Statistics
Matches: 136, Mismatches: 18, Indels: 39
0.70 0.09 0.20
Matches are distributed among these distances:
14 18 0.13
15 67 0.49
16 21 0.15
17 8 0.06
18 9 0.07
19 2 0.01
20 3 0.02
21 5 0.04
22 3 0.02
ACGTcount: A:0.28, C:0.09, G:0.03, T:0.61
Consensus pattern (15 bp):
TTATTATTACTATTA
Found at i:26551080 original size:3 final size:3
Alignment explanation
Indices: 26551067--26551113 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
26551057 CTATTGATGT
*
26551067 TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
26551114 TTACTATTTG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:26551425 original size:24 final size:23
Alignment explanation
Indices: 26551398--26551482 Score: 82
Period size: 24 Copynumber: 3.6 Consensus size: 23
26551388 ATTTAAACCA
*
26551398 TTTTATATGTTATTTATTTTAAAG
1 TTTT-TATATTATTTATTTTAAAG
* *
26551422 TTTTTAAATTATTTATTTTTAAG
1 TTTTTATATTATTTATTTTAAAG
*
26551445 CTCTTTT-TATTATTTATTTTAAAC
1 -T-TTTTATATTATTTATTTTAAAG
*
26551469 TTTTATACATTATT
1 TTTT-TATATTATT
26551483 CATTCGAAAC
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
22 3 0.06
23 18 0.36
24 25 0.50
25 4 0.08
ACGTcount: A:0.28, C:0.05, G:0.04, T:0.64
Consensus pattern (23 bp):
TTTTTATATTATTTATTTTAAAG
Found at i:26551500 original size:48 final size:47
Alignment explanation
Indices: 26551407--26551502 Score: 120
Period size: 48 Copynumber: 2.0 Consensus size: 47
26551397 ATTTTATATG
* * *** *
26551407 TTATTTATTTTAAAGTTTTTAAATTATTTATTTTTAAGCTCTTTTTA
1 TTATTTATTTTAAACTTTTTAAATTATTCATTCGAAACCTCTTTTTA
*
26551454 TTATTTATTTTAAACTTTTATACATTATTCATTCGAAACCTCTTTTTA
1 TTATTTATTTTAAACTTTT-TAAATTATTCATTCGAAACCTCTTTTTA
26551502 T
1 T
26551503 ATTCTTTATT
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
47 18 0.44
48 23 0.56
ACGTcount: A:0.28, C:0.09, G:0.03, T:0.59
Consensus pattern (47 bp):
TTATTTATTTTAAACTTTTTAAATTATTCATTCGAAACCTCTTTTTA
Found at i:26563752 original size:41 final size:41
Alignment explanation
Indices: 26563676--26564058 Score: 590
Period size: 41 Copynumber: 9.4 Consensus size: 41
26563666 CGTTTTACCA
* *
26563676 AAAACGCCGCTAAAAA-CAGAGCAATAGCGGAGCTTTCGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGT
26563716 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGT
26563757 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGT
26563798 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGT
* *
26563839 AAAACGCCGCTAAAAACCAAAGCAATAGCGGCGCTTTCGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGT
* * *
26563880 AAAACGCTGCTAAAAACCAGAGCAATAGCGGTGCTTTCGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGT
* * *
26563921 AAAACGCCGCTAAAAA-TAGGAGCAATAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAACCA-GAGCATTAGCGGCGCTTTCGGT
* *
26563962 AAAACACCACTAAAAACCAGAGCATTAGCGGCGCTTTCGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGT
** *
26564003 AAAACGCCGCTAAAAACTGGAGCATTAGCGGCGCTTTCGAT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGT
* *
26564044 AAAATGCCTCTAAAA
1 AAAACGCCGCTAAAA
26564059 GTCATAACCC
Statistics
Matches: 317, Mismatches: 23, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
40 17 0.05
41 299 0.94
42 1 0.00
ACGTcount: A:0.35, C:0.25, G:0.23, T:0.17
Consensus pattern (41 bp):
AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGT
Found at i:26564142 original size:15 final size:16
Alignment explanation
Indices: 26564110--26564142 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
26564100 ACTAATCTAT
*
26564110 AACCCCTAAAATACTA
1 AACCCCTAAAACACTA
26564126 AACCCCT-AAACACTA
1 AACCCCTAAAACACTA
26564141 AA
1 AA
26564143 ATATAACCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.52, C:0.33, G:0.00, T:0.15
Consensus pattern (16 bp):
AACCCCTAAAACACTA
Found at i:26565574 original size:62 final size:63
Alignment explanation
Indices: 26565504--26565634 Score: 185
Period size: 64 Copynumber: 2.1 Consensus size: 63
26565494 CTTCCTGTAA
26565504 TTTTCAATCGTCTTA-AAATTTTAGA-AATTTTAATTTGGGTTTCTTATTTTCTATTATATTAG
1 TTTTCAATCGTCTTAGAAATTTTAGATAATTTTAATTTGGGTTTCTTA-TTTCTATTATATTAG
* ** **
26565566 TTTTCAATCGTCTTAGAAATTTTTGATTTTTTTTTGTTTGGGTTTCTTATTTCTATTATATTAG
1 TTTTCAATCGTCTTAGAAATTTTAGA-TAATTTTAATTTGGGTTTCTTATTTCTATTATATTAG
26565630 TTTTC
1 TTTTC
26565635 TAGTTTCCTG
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
62 15 0.25
63 9 0.15
64 20 0.33
65 17 0.28
ACGTcount: A:0.22, C:0.08, G:0.11, T:0.59
Consensus pattern (63 bp):
TTTTCAATCGTCTTAGAAATTTTAGATAATTTTAATTTGGGTTTCTTATTTCTATTATATTAG
Found at i:26568869 original size:23 final size:23
Alignment explanation
Indices: 26568839--26568942 Score: 172
Period size: 23 Copynumber: 4.5 Consensus size: 23
26568829 TGGTTGCTGC
26568839 TGTTTAAATGTTGTAAATTGAAG
1 TGTTTAAATGTTGTAAATTGAAG
*
26568862 TGTTTAAATGCTGTAAATTGAAG
1 TGTTTAAATGTTGTAAATTGAAG
*
26568885 TGTTTAAATGTTGTAAACTGAAG
1 TGTTTAAATGTTGTAAATTGAAG
**
26568908 AATTTAAATGTTGTAAATTGAAG
1 TGTTTAAATGTTGTAAATTGAAG
26568931 TGTTTAAATGTT
1 TGTTTAAATGTT
26568943 CTTTGTGTAG
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 73 1.00
ACGTcount: A:0.36, C:0.02, G:0.20, T:0.42
Consensus pattern (23 bp):
TGTTTAAATGTTGTAAATTGAAG
Found at i:26569470 original size:42 final size:43
Alignment explanation
Indices: 26569413--26569635 Score: 245
Period size: 42 Copynumber: 5.3 Consensus size: 43
26569403 ATATATGGTT
* *
26569413 TTTAGCGGCGTTTTTGGGGAAAGTGTCGCTATAGGTCACGATC
1 TTTAGCGGCGTTTTTGGGGAAAGCGTCGCTAAAGGTCACGATC
* * * *
26569456 TTTAGC-GTGTTTTTGGGGAAAGCGTTGCTATAGGTCACGATT
1 TTTAGCGGCGTTTTTGGGGAAAGCGTCGCTAAAGGTCACGATC
* * *
26569498 TTTAGCGGCGTTTTTAGGGAAAGCGCCGCTAAAGGTCACGATT
1 TTTAGCGGCGTTTTTGGGGAAAGCGTCGCTAAAGGTCACGATC
* * * *
26569541 TTTAGCGGCGTTTCTGAGG-AAGCATCGCTAAAGGTCCCGATC
1 TTTAGCGGCGTTTTTGGGGAAAGCGTCGCTAAAGGTCACGATC
* * * * * *
26569583 TTTAGTGGCATTTCT-GAGAAAGCGCCGCTAAAGGTCCCGATC
1 TTTAGCGGCGTTTTTGGGGAAAGCGTCGCTAAAGGTCACGATC
*
26569625 TTTAGTGGCGT
1 TTTAGCGGCGT
26569636 GTGCTATAGC
Statistics
Matches: 155, Mismatches: 23, Indels: 5
0.85 0.13 0.03
Matches are distributed among these distances:
41 1 0.01
42 101 0.65
43 53 0.34
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.31
Consensus pattern (43 bp):
TTTAGCGGCGTTTTTGGGGAAAGCGTCGCTAAAGGTCACGATC
Found at i:26569576 original size:85 final size:85
Alignment explanation
Indices: 26569411--26569635 Score: 256
Period size: 85 Copynumber: 2.6 Consensus size: 85
26569401 ATATATATGG
* * * * * *
26569411 TTTTTAGCGGCGTTTTTGGGGAAAGTGTCGCTATAGGTCACGATCTTTAGC-GTGTTTTTGGGGA
1 TTTTTAGCGGCGTTTTT-GGGAAAGCGCCGCTAAAGGTCACGATCTTTAGCGGCGTTTCTGAGGA
* * *
26569475 AAGCGTTGCTATAGGTCACGA
65 AAGCATCGCTAAAGGTCACGA
*
26569496 TTTTTAGCGGCGTTTTTAGGGAAAGCGCCGCTAAAGGTCACGATTTTTAGCGGCGTTTCTGAGG-
1 TTTTTAGCGGCGTTTTT-GGGAAAGCGCCGCTAAAGGTCACGATCTTTAGCGGCGTTTCTGAGGA
*
26569560 AAGCATCGCTAAAGGTCCCGA
65 AAGCATCGCTAAAGGTCACGA
* * * * * * *
26569581 TCTTTAGTGGCATTTCTGAGAAAGCGCCGCTAAAGGTCCCGATCTTTAGTGGCGT
1 TTTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAAAGGTCACGATCTTTAGCGGCGT
26569636 GTGCTATAGC
Statistics
Matches: 119, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
84 34 0.29
85 76 0.64
86 9 0.08
ACGTcount: A:0.20, C:0.18, G:0.30, T:0.32
Consensus pattern (85 bp):
TTTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAAAGGTCACGATCTTTAGCGGCGTTTCTGAGGAA
AGCATCGCTAAAGGTCACGA
Found at i:26570187 original size:18 final size:18
Alignment explanation
Indices: 26570164--26570201 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
26570154 GGCAGTAAAT
26570164 TTACTTGTCATATTTGAG
1 TTACTTGTCATATTTGAG
26570182 TTACTTGTCATATTTGAG
1 TTACTTGTCATATTTGAG
26570200 TT
1 TT
26570202 GGCAATTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.11, G:0.16, T:0.53
Consensus pattern (18 bp):
TTACTTGTCATATTTGAG
Found at i:26573342 original size:24 final size:23
Alignment explanation
Indices: 26573309--26573354 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
26573299 CAGCTCTTCG
*
26573309 TGAGCGTCCTGATATAGGCTCTTA
1 TGAGCGTCCTGACAT-GGCTCTTA
*
26573333 TGAGCTTCCTGACATGGCTCTT
1 TGAGCGTCCTGACATGGCTCTT
26573355 TAAACTCCCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (23 bp):
TGAGCGTCCTGACATGGCTCTTA
Found at i:26576256 original size:26 final size:26
Alignment explanation
Indices: 26576227--26576279 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
26576217 TTTACAGTTT
*
26576227 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCATAGG-GATAAATTGACCGAAA
* *
26576253 TACCCATAGGGTTAAATTGACCTAAA
1 TACCCATAGGGATAAATTGACCGAAA
26576279 T
1 T
26576280 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCATAGGGATAAATTGACCGAAA
Found at i:26581795 original size:26 final size:26
Alignment explanation
Indices: 26581758--26581841 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
26581748 TGATACAAAT
* *
26581758 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
26581784 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
26581810 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
26581836 TGATAA
1 TGATAA
26581842 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:26583350 original size:26 final size:27
Alignment explanation
Indices: 26583285--26583360 Score: 100
Period size: 26 Copynumber: 2.8 Consensus size: 27
26583275 AAAAGCAGCT
* *
26583285 AAATTACTATAATACCCCTATGTACAGA
1 AAATTACTATTATACCCCTAGGTACA-A
*
26583313 AAATTACTATTATACCCCTAGGTGC-A
1 AAATTACTATTATACCCCTAGGTACAA
*
26583339 AAATTACCATTATACCCCTAGG
1 AAATTACTATTATACCCCTAGG
26583361 GTTACTTTTG
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 22 0.50
28 22 0.50
ACGTcount: A:0.38, C:0.24, G:0.09, T:0.29
Consensus pattern (27 bp):
AAATTACTATTATACCCCTAGGTACAA
Found at i:26583504 original size:27 final size:26
Alignment explanation
Indices: 26583464--26583658 Score: 246
Period size: 27 Copynumber: 7.2 Consensus size: 26
26583454 AGGAAGCGTC
26583464 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTATGCCAC-ATTATCTGAT
* *
26583491 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAT-TATCTGAT
26583518 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTATGCCAC-ATTATCTGAT
* *
26583545 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAT-TATCTGAT
26583572 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTATGCCAC-ATTATCTGAT
* *
26583599 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAT-TATCTGAT
* *
26583626 CTGGTGGCTTTGCCACAATATCTGTAT
1 CTGGTGGCTATGCCACATTATCTG-AT
*
26583653 ATGGTG
1 CTGGTG
26583659 ACTTCGTCAC
Statistics
Matches: 148, Mismatches: 14, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
26 12 0.08
27 132 0.89
28 4 0.03
ACGTcount: A:0.17, C:0.23, G:0.24, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTATGCCACATTATCTGAT
Found at i:26583546 original size:54 final size:54
Alignment explanation
Indices: 26583464--26583658 Score: 338
Period size: 54 Copynumber: 3.6 Consensus size: 54
26583454 AGGAAGCGTC
*
26583464 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
26583518 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
26583572 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* * *
26583626 CTGGTGGCTTTGCCAC-AATATCTGTATATGGTG
1 CTGGTGGCTATGCCACGATTATCTG-ATCTGGTG
26583659 ACTTCGTCAC
Statistics
Matches: 136, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
53 7 0.05
54 129 0.95
ACGTcount: A:0.17, C:0.23, G:0.24, T:0.35
Consensus pattern (54 bp):
CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:26584540 original size:57 final size:57
Alignment explanation
Indices: 26584472--26584585 Score: 228
Period size: 57 Copynumber: 2.0 Consensus size: 57
26584462 ATCTATAATG
26584472 AAATTATCTTTTAAAACACTAAGTAAGTTTTTCAGGATCAACAATATAAAATGTTTT
1 AAATTATCTTTTAAAACACTAAGTAAGTTTTTCAGGATCAACAATATAAAATGTTTT
26584529 AAATTATCTTTTAAAACACTAAGTAAGTTTTTCAGGATCAACAATATAAAATGTTTT
1 AAATTATCTTTTAAAACACTAAGTAAGTTTTTCAGGATCAACAATATAAAATGTTTT
26584586 GAACGCTTCG
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.39
Consensus pattern (57 bp):
AAATTATCTTTTAAAACACTAAGTAAGTTTTTCAGGATCAACAATATAAAATGTTTT
Found at i:26597164 original size:17 final size:17
Alignment explanation
Indices: 26597144--26597177 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
26597134 AGTTTTGGGT
26597144 TTAAAAATTTTAATTAA
1 TTAAAAATTTTAATTAA
*
26597161 TTAAAATTTTTAATTAA
1 TTAAAAATTTTAATTAA
26597178 AAATCTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTAAAAATTTTAATTAA
Found at i:26598661 original size:23 final size:24
Alignment explanation
Indices: 26598621--26598666 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
26598611 TTTCTTTTTG
* *
26598621 ACGTTTTGGTT-CATTTTTTTGTA
1 ACGTTTTGGTTAAATTTTATTGTA
26598644 ACGTTTTGGTTAAATTTTATTGT
1 ACGTTTTGGTTAAATTTTATTGT
26598667 GACATGTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.17, C:0.07, G:0.17, T:0.59
Consensus pattern (24 bp):
ACGTTTTGGTTAAATTTTATTGTA
Found at i:26601860 original size:152 final size:152
Alignment explanation
Indices: 26601676--26601978 Score: 588
Period size: 152 Copynumber: 2.0 Consensus size: 152
26601666 CAGATGTCAG
26601676 GAAATCTGAAAAACAAATATTATATTGACAGATAAAGTCATTATAAGTCAAAATTTGTTTTTCCA
1 GAAATCTGAAAAACAAATATTATATTGACAGATAAAGTCATTATAAGTCAAAATTTGTTTTTCCA
26601741 AATTAGTAGGATGATTGACTTACTTTCAGCCAGTAGCAAGAATAAGGTTACAAGTATATTGAAAG
66 AATTAGTAGGATGATTGACTTACTTTCAGCCAGTAGCAAGAATAAGGTTACAAGTATATTGAAAG
26601806 TGGCAATTACTTCTTAAGACTA
131 TGGCAATTACTTCTTAAGACTA
*
26601828 GAAATCTGAAAAACAAATATTATATTGACAGATAAAGTCATTATAAGTCAAATTTTGTTTTTCCA
1 GAAATCTGAAAAACAAATATTATATTGACAGATAAAGTCATTATAAGTCAAAATTTGTTTTTCCA
*
26601893 AATTAGTAGGATGATTGACTTACTTTCAGCCAGTAGCAAGAATGAGGTTACAAGTATATTGAAAG
66 AATTAGTAGGATGATTGACTTACTTTCAGCCAGTAGCAAGAATAAGGTTACAAGTATATTGAAAG
26601958 TGGCAATTACTTCTTAAGACT
131 TGGCAATTACTTCTTAAGACT
26601979 TCCATTAAAA
Statistics
Matches: 149, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
152 149 1.00
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (152 bp):
GAAATCTGAAAAACAAATATTATATTGACAGATAAAGTCATTATAAGTCAAAATTTGTTTTTCCA
AATTAGTAGGATGATTGACTTACTTTCAGCCAGTAGCAAGAATAAGGTTACAAGTATATTGAAAG
TGGCAATTACTTCTTAAGACTA
Found at i:26603655 original size:20 final size:20
Alignment explanation
Indices: 26603622--26603661 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
26603612 GAAAATAATT
*
26603622 GAAACAACTAAGTAAGTAAA
1 GAAACAACTAAGTAAATAAA
26603642 GAAACTAACT-AGTAAATAAA
1 GAAAC-AACTAAGTAAATAAA
26603662 TAATTAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.60, C:0.10, G:0.12, T:0.17
Consensus pattern (20 bp):
GAAACAACTAAGTAAATAAA
Found at i:26604530 original size:24 final size:23
Alignment explanation
Indices: 26604501--26604549 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
26604491 CCAATATCAT
* *
26604501 AAAAATATTTTAATCTTTTGTTAA
1 AAAAATAATTTAATCCTTT-TTAA
*
26604525 AAAAATAATTTGATCCTTTTTAA
1 AAAAATAATTTAATCCTTTTTAA
26604548 AA
1 AA
26604550 GGTTAAAGGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 6 0.27
24 16 0.73
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (23 bp):
AAAAATAATTTAATCCTTTTTAA
Found at i:26608648 original size:26 final size:26
Alignment explanation
Indices: 26608610--26608693 Score: 134
Period size: 26 Copynumber: 3.2 Consensus size: 26
26608600 TGATACAAAT
*
26608610 TGATAAT-AGGTTAGGTAAATGTTCCA
1 TGATAATGA-GTTAGGTAAATGTTTCA
26608636 TGATAATGAGTTAGGTAAATGTTTCA
1 TGATAATGAGTTAGGTAAATGTTTCA
*
26608662 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGAGTTAGGTAAATGTTTCA
26608688 TGATAA
1 TGATAA
26608694 GAATTTCATG
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
26 54 0.98
27 1 0.02
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGAGTTAGGTAAATGTTTCA
Found at i:26610389 original size:27 final size:26
Alignment explanation
Indices: 26610310--26610424 Score: 113
Period size: 27 Copynumber: 4.3 Consensus size: 26
26610300 TGGAGGAAGC
* *
26610310 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-ATTATCT
*
26610337 GATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTCTGCCACAT-TATCT
*
26610364 GTTCTGGTGGCTCTACCACGATTATCT
1 GTTCTGGTGGCTCTGCCAC-ATTATCT
* * * * *
26610391 ATATTTGGTGACCCTGTCACATTATCT
1 GT-TCTGGTGGCTCTGCCACATTATCT
26610418 GTTCTGG
1 GTTCTGG
26610425 CAGCCATGCT
Statistics
Matches: 72, Mismatches: 13, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
26 5 0.07
27 53 0.74
28 14 0.19
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACATTATCT
Found at i:26612132 original size:71 final size:71
Alignment explanation
Indices: 26612016--26612156 Score: 212
Period size: 71 Copynumber: 2.0 Consensus size: 71
26612006 TAAGGGTGCC
* * * *
26612016 TACCTGGGCTCTTGTCAGGTTGTCATTCATTCTACCACATATGATCCTTGGGGTAGGGGTATAAC
1 TACCTGGGCTCTTGTCAAGTTGTCAATCATTCTACCACATATGATCCTTGGGGTAGAGATATAAC
26612081 AATTTT
66 AATTTT
* *
26612087 TACCTGGGCTCTTGTCAAGTTGTCAATCGTT-TAGCCACATGTGATCCTTGGGGTAGAGATATAA
1 TACCTGGGCTCTTGTCAAGTTGTCAATCATTCTA-CCACATATGATCCTTGGGGTAGAGATATAA
26612151 CAATTT
65 CAATTT
26612157 CCCCCTGTTC
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
70 2 0.03
71 61 0.97
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (71 bp):
TACCTGGGCTCTTGTCAAGTTGTCAATCATTCTACCACATATGATCCTTGGGGTAGAGATATAAC
AATTTT
Done.