Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009051.1 Hibiscus syriacus cultivar Beakdansim tig00112465_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: 59372
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.33
Found at i:507 original size:20 final size:20
Alignment explanation
Indices: 482--539 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
472 ATCAGATTGT
482 CCAGGGGGTACAGATTCCCC
1 CCAGGGGGTACAGATTCCCC
* *
502 CCAGGGGGAATAGATT-CCC
1 CCAGGGGGTACAGATTCCCC
521 CCA-GGGGTATC-GATTCCCC
1 CCAGGGGGTA-CAGATTCCCC
540 GGGTACAGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
18 9 0.28
19 9 0.28
20 14 0.44
ACGTcount: A:0.21, C:0.33, G:0.29, T:0.17
Consensus pattern (20 bp):
CCAGGGGGTACAGATTCCCC
Found at i:4004 original size:19 final size:19
Alignment explanation
Indices: 3935--4025 Score: 86
Period size: 20 Copynumber: 5.0 Consensus size: 19
3925 CAATTTACAA
** *
3935 AGGGGTACAGATT-GTCCA
1 AGGGGTACAGATTCCCCCC
3953 AGGGGTACAGATTCCCCCC
1 AGGGGTACAGATTCCCCCC
*
3972 AGGGGGAACAGATTCCCCCC
1 A-GGGGTACAGATTCCCCCC
3992 AGGGGTATC-GATT--CCCC
1 AGGGGTA-CAGATTCCCCCC
4009 --GGGTACAGATTCCCCCC
1 AGGGGTACAGATTCCCCCC
4026 TACATGGTTT
Statistics
Matches: 62, Mismatches: 5, Indels: 13
0.77 0.06 0.16
Matches are distributed among these distances:
14 1 0.02
15 9 0.15
17 8 0.13
18 13 0.21
19 12 0.19
20 19 0.31
ACGTcount: A:0.22, C:0.32, G:0.29, T:0.18
Consensus pattern (19 bp):
AGGGGTACAGATTCCCCCC
Found at i:4240 original size:21 final size:21
Alignment explanation
Indices: 4207--4246 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
4197 TTTTTGCAGA
*
4207 AAAATCATTCCCAAACGGCTCC
1 AAAATCA-TCCCCAACGGCTCC
4229 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCCAACGGCT
4247 AGATATGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 2 0.12
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCCAACGGCTCC
Found at i:7995 original size:73 final size:73
Alignment explanation
Indices: 7915--8133 Score: 286
Period size: 72 Copynumber: 3.0 Consensus size: 73
7905 GACGAATGAA
*
7915 TCACCCACGATTTTAACTTCACAACGAAGGATATTGTACCCAAAAGTTTCGACTTAACTTCACAA
1 TCACCCACGATTTAAACTTCACAACGAAGGATATTGTACCCAAAAGTTTCGACTTAACTTCACAA
7980 TAAAGGAG
66 TAAAGGAG
* *
7988 TCACCCACGATTTAAACTTCACAACGAAGGATATCGTACCC-AAAGTTTCGACTTAACTTCACGA
1 TCACCCACGATTTAAACTTCACAACGAAGGATATTGTACCCAAAAGTTTCGACTTAACTTCACAA
**
8052 CGAAGGAG
66 TAAAGGAG
* * * *
8060 TCACTCC-CGATTTCAACTT-A-AATCGAAGGATATTGTGCCCAATAG-ATCGACTTAACTTCAC
1 TCAC-CCACGATTTAAACTTCACAA-CGAAGGATATTGTACCCAAAAGTTTCGACTTAACTTCAC
* *
8121 AGTAAATGAG
64 AATAAAGGAG
8131 TCA
1 TCA
8134 TCTGCAACAA
Statistics
Matches: 128, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
70 2 0.02
71 39 0.30
72 46 0.36
73 41 0.32
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.26
Consensus pattern (73 bp):
TCACCCACGATTTAAACTTCACAACGAAGGATATTGTACCCAAAAGTTTCGACTTAACTTCACAA
TAAAGGAG
Found at i:8946 original size:28 final size:28
Alignment explanation
Indices: 8912--8992 Score: 107
Period size: 28 Copynumber: 3.0 Consensus size: 28
8902 TTAAAAAACT
8912 ATTTTGAAAACATATAGTTTTTAAAATA
1 ATTTTGAAAACATATAGTTTTTAAAATA
8940 ATTTTGAAAACATATAGTTTTT----TA
1 ATTTTGAAAACATATAGTTTTTAAAATA
*
8964 ATTTTGAAAATGTATATAGTTTTTAAAAT
1 ATTTTGAAAA--CATATAGTTTTTAAAAT
8993 GGTTTTTCGA
Statistics
Matches: 46, Mismatches: 1, Indels: 10
0.81 0.02 0.18
Matches are distributed among these distances:
24 12 0.26
26 11 0.24
28 22 0.48
30 1 0.02
ACGTcount: A:0.42, C:0.02, G:0.09, T:0.47
Consensus pattern (28 bp):
ATTTTGAAAACATATAGTTTTTAAAATA
Found at i:9092 original size:16 final size:15
Alignment explanation
Indices: 9059--9097 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
9049 AAATAATTCT
*
9059 TTATTATTTTATTTA
1 TTATTATTTTAGTTA
9074 TTATTATTTTAGGTTA
1 TTATTATTTTA-GTTA
9090 TTATTATT
1 TTATTATT
9098 ATTTATTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 11 0.50
16 11 0.50
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (15 bp):
TTATTATTTTAGTTA
Found at i:13838 original size:26 final size:27
Alignment explanation
Indices: 13809--13862 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
13799 ATGGTCTGAC
*
13809 GTGGCAG-TTTCTAGAAGGTCCAGTCA
1 GTGGCAGTTTTCTAGAAGATCCAGTCA
*
13835 GTGGCAGTTTTCTAGAAGATCTAGTCA
1 GTGGCAGTTTTCTAGAAGATCCAGTCA
13862 G
1 G
13863 CGCGTCTTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 7 0.28
27 18 0.72
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (27 bp):
GTGGCAGTTTTCTAGAAGATCCAGTCA
Found at i:20232 original size:26 final size:27
Alignment explanation
Indices: 20203--20254 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
20193 GGTCTGATGT
*
20203 GGCAG-TTTCTAGAAGGTCCAGTCAGC
1 GGCAGTTTTCTAGAAGATCCAGTCAGC
*
20229 GGCAGTTTTCTAGAAGATCTAGTCAG
1 GGCAGTTTTCTAGAAGATCCAGTCAG
20255 TGCGCCTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 5 0.22
27 18 0.78
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (27 bp):
GGCAGTTTTCTAGAAGATCCAGTCAGC
Found at i:21176 original size:14 final size:14
Alignment explanation
Indices: 21157--21184 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
21147 TACCAACCCC
21157 CATTTTACTACTTA
1 CATTTTACTACTTA
21171 CATTTTACTACTTA
1 CATTTTACTACTTA
21185 TCTCTTGGTA
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:0.29, C:0.21, G:0.00, T:0.50
Consensus pattern (14 bp):
CATTTTACTACTTA
Found at i:22913 original size:44 final size:44
Alignment explanation
Indices: 22864--23001 Score: 276
Period size: 44 Copynumber: 3.1 Consensus size: 44
22854 ACAACACGTG
22864 GCAATGGTTAATAAACAAATAATTGAAATCTCGCAACAACCAGA
1 GCAATGGTTAATAAACAAATAATTGAAATCTCGCAACAACCAGA
22908 GCAATGGTTAATAAACAAATAATTGAAATCTCGCAACAACCAGA
1 GCAATGGTTAATAAACAAATAATTGAAATCTCGCAACAACCAGA
22952 GCAATGGTTAATAAACAAATAATTGAAATCTCGCAACAACCAGA
1 GCAATGGTTAATAAACAAATAATTGAAATCTCGCAACAACCAGA
22996 GCAATG
1 GCAATG
23002 CATGATACTC
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 94 1.00
ACGTcount: A:0.47, C:0.18, G:0.14, T:0.20
Consensus pattern (44 bp):
GCAATGGTTAATAAACAAATAATTGAAATCTCGCAACAACCAGA
Found at i:23463 original size:20 final size:20
Alignment explanation
Indices: 23438--23475 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
23428 TTCAACAATG
* *
23438 AAGGGATCGATTCTTTTTGA
1 AAGGGATAGATCCTTTTTGA
23458 AAGGGATAGATCCTTTTT
1 AAGGGATAGATCCTTTTT
23476 CACGAGGGGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.11, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGGGATAGATCCTTTTTGA
Found at i:24845 original size:2 final size:2
Alignment explanation
Indices: 24838--24891 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
24828 ACATATTCAC
24838 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
24880 AT AT AT AT AT AT
1 AT AT AT AT AT AT
24892 TTCAAATACG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27498 original size:23 final size:23
Alignment explanation
Indices: 27472--27519 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
27462 ATAAAGTACA
* *
27472 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGATAGCGCTTAT
**
27495 ATAATGTAATAGATAGCGCTTAT
1 ATAACATAATAGATAGCGCTTAT
27518 AT
1 AT
27520 TTACCTATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGATAGCGCTTAT
Found at i:27927 original size:21 final size:22
Alignment explanation
Indices: 27902--27953 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
27892 ACACTTTACA
*
27902 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
27925 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
27948 ATATAA
1 ATATAA
27954 GGGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:27938 original size:23 final size:23
Alignment explanation
Indices: 27912--27974 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
27902 ATATAACCAC
27912 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
27935 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
27958 TACCTATTACATCATAT
1 TACCTATTACATTATAT
27975 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:28352 original size:39 final size:39
Alignment explanation
Indices: 28298--28384 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
28288 TCAAGTTGTA
*
28298 GATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
*
28337 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
28376 GATTTTGAT
1 GATTTTGAT
28385 GAGCATCGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.17, C:0.14, G:0.21, T:0.48
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
Found at i:28666 original size:18 final size:18
Alignment explanation
Indices: 28643--28679 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
28633 CGAAATATAT
28643 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
28661 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
28679 A
1 A
28680 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:28956 original size:25 final size:25
Alignment explanation
Indices: 28928--28978 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
28918 TTAATCCAAA
*
28928 TAATGTACCCATAACAATGTTCAAT
1 TAATGTACCCACAACAATGTTCAAT
*
28953 TAATGTACCCACAACAATGTTTAAT
1 TAATGTACCCACAACAATGTTCAAT
28978 T
1 T
28979 GATTTGTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (25 bp):
TAATGTACCCACAACAATGTTCAAT
Found at i:29256 original size:31 final size:31
Alignment explanation
Indices: 29218--29280 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
29208 AAGTATGGAC
29218 ACTTTTATAAAAAGGATAGACACTTTACAAT
1 ACTTTTATAAAAAGGATAGACACTTTACAAT
29249 ACTTTTATAAAAAGGATAGACACTTTACAAT
1 ACTTTTATAAAAAGGATAGACACTTTACAAT
29280 A
1 A
29281 TAACCACTAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.46, C:0.13, G:0.10, T:0.32
Consensus pattern (31 bp):
ACTTTTATAAAAAGGATAGACACTTTACAAT
Found at i:29303 original size:21 final size:22
Alignment explanation
Indices: 29278--29329 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
29268 ACACTTTACA
*
29278 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
29301 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
29324 ATATAA
1 ATATAA
29330 GGGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:29314 original size:23 final size:23
Alignment explanation
Indices: 29288--29350 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
29278 ATATAACCAC
29288 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
29311 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
29334 TACCTATTACATCATAT
1 TACCTATTACATTATAT
29351 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:29770 original size:23 final size:22
Alignment explanation
Indices: 29708--29779 Score: 81
Period size: 23 Copynumber: 3.2 Consensus size: 22
29698 ACACTTTACA
*
29708 ATATAACCACTACCTATTACATT
1 ATATAA-CGCTACCTATTACATT
* *
29731 ATATAACGATACCTATTTCATT
1 ATATAACGCTACCTATTACATT
* *
29753 ATATAAGGGCTACCTATTACATC
1 ATATAA-CGCTACCTATTACATT
29776 ATAT
1 ATAT
29780 GTTTACCTAT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
22 19 0.46
23 22 0.54
ACGTcount: A:0.38, C:0.21, G:0.06, T:0.36
Consensus pattern (22 bp):
ATATAACGCTACCTATTACATT
Found at i:30160 original size:21 final size:22
Alignment explanation
Indices: 30135--30186 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
30125 AAACTTTACA
*
30135 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
30158 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
30181 ATATAA
1 ATATAA
30187 GGGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:30171 original size:23 final size:23
Alignment explanation
Indices: 30145--30207 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
30135 ATATAACCAC
30145 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
30168 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
30191 TACCTATTACATCATAT
1 TACCTATTACATTATAT
30208 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:30258 original size:21 final size:20
Alignment explanation
Indices: 30225--30268 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
30215 TATTATATTG
*
30225 AAAGTATCCATACTTTTTATA
1 AAAGGATCCATACTTTTT-TA
*
30246 AAAGGATCGATACTTTTTTA
1 AAAGGATCCATACTTTTTTA
30266 AAA
1 AAA
30269 CTTATGTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.41, C:0.11, G:0.09, T:0.39
Consensus pattern (20 bp):
AAAGGATCCATACTTTTTTA
Found at i:30599 original size:23 final size:23
Alignment explanation
Indices: 30573--30635 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
30563 ATATAACCAC
30573 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* ** *
30596 TACCTATTTCATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
30619 TACCTATTACATCATAT
1 TACCTATTACATTATAT
30636 GTTTACCTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.37, C:0.19, G:0.06, T:0.38
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:30944 original size:430 final size:431
Alignment explanation
Indices: 29249--31164 Score: 3584
Period size: 428 Copynumber: 4.5 Consensus size: 431
29239 ACTTTACAAT
29249 ACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATAC
1 ACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATAC
29314 CTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCAT
66 CTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCAT
29379 ACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTTTTTAA
131 ACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTTTTTAA
*
29444 CATTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATTATTTG
196 CAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATTATTTG
29509 ATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATACCGTAAC
261 ATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATACCGTAAC
29574 GTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGAT
326 GTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGAT
* *
29639 AACCTTAAATTAATGTTTTCCACATTG-AAAAAGTATGGAC
391 AACATTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGAC
29679 ACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATAT-AACGATAC
1 ACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATAC
*
29743 CTATTTCATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCAT
66 CTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCAT
29808 ACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCAA-TTTTTTAA
131 ACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTTTTTAA
*
29872 CAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCAGAAAAAATTATTTG
196 CAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATTATTTG
*
29937 CTTGTTTTTATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAAT-A-ATATACCGTAAC
261 ATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATACCGTAAC
30000 GTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAA-AT
326 GTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGA-
*
30064 TAATATTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGAC
390 TAACATTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGAC
*
30106 ACTTTTATAAAAAGGATAGAAACTTTACAATATAACCACTACCTATTACATTATATAAACGATAC
1 ACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATAC
*
30171 CTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGAAAGTATCCAT
66 CTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCAT
30236 ACTTTTTAT-AAAAGGATCGATAC-TTTTTTAAAACTTATGTAATTTATGTTTCAA-TTTTTTAA
131 ACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTTTTTAA
*
30298 CATTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATTATTTG
196 CAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATTATTTG
30363 ATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATACCGTAAC
261 ATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATACCGTAAC
30428 GTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGAT
326 GTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGAT
* *
30493 AACCTTAAATTAATGTTTTCCACATTGAAAAAAGTATGGAC
391 AACATTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGAC
30534 ACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATAC
1 ACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATAC
*
30599 CTATTTCATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCAT
66 CTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCAT
30664 ACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTTTTTAA
131 ACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTTTTTAA
*
30729 CAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCAGAAAAAATTATTTG
196 CAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATTATTTG
30794 ATTGTTTTTATATTTTAT-AAATATTATTTAGAATTTTTAATTTAATAATAATATATACCGTAAC
261 ATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATACCGTAAC
30858 GTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAA-AT
326 GTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGA-
*
30922 TAATATTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGAC
390 TAACATTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGAC
*
30964 ACTTTTATAAAAAGGATAGAAACTTTACAATATAACCACTACCTATTACATTATATAAACGATAC
1 ACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATAC
*
31029 CTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTTCAT
66 CTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCAT
31094 ACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTTTTTAA
131 ACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTTTTTAA
31159 CAGTGT
196 CAGTGT
31165 ACTGCGAATT
Statistics
Matches: 1449, Mismatches: 27, Indels: 20
0.97 0.02 0.01
Matches are distributed among these distances:
425 1 0.00
426 250 0.17
427 84 0.06
428 449 0.31
429 144 0.10
430 432 0.30
431 89 0.06
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.40
Consensus pattern (431 bp):
ACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATAC
CTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCAT
ACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTTTTTAA
CAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATTATTTG
ATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATACCGTAAC
GTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGAT
AACATTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGAC
Found at i:31018 original size:21 final size:22
Alignment explanation
Indices: 30993--31044 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
30983 AAACTTTACA
*
30993 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
31016 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
31039 ATATAA
1 ATATAA
31045 GGGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:31029 original size:23 final size:23
Alignment explanation
Indices: 31003--31065 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
30993 ATATAACCAC
31003 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
31026 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
31049 TACCTATTACATCATAT
1 TACCTATTACATTATAT
31066 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:31080 original size:858 final size:857
Alignment explanation
Indices: 29249--31160 Score: 3715
Period size: 858 Copynumber: 2.2 Consensus size: 857
29239 ACTTTACAAT
*
29249 ACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATAC
1 ACTTTTATAAAAAGGATAGAAACTTTACAATATAACCACTACCTATTACATTATATAAACGATAC
29314 CTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCAT
66 CTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCAT
29379 ACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTTTTTAA
131 ACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTTTTTAA
29444 CATTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATTATTTG
196 CATTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATTATTTG
29509 ATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATACCGTAAC
261 ATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATACCGTAAC
29574 GTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGAT
326 GTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGAT
29639 AACCTTAAATTAATGTTTTCCACATTGAAAAAGTATGGACACTTTTATAAAAAGGATAGACACTT
391 AACCTTAAATTAATGTTTTCCACATTGAAAAAGTATGGACACTTTTATAAAAAGGATAGACACTT
29704 TACAATATAACCACTACCTATTACATTATATAACGATACCTATTTCATTATATAAGGGCTACCTA
456 TACAATATAACCACTACCTATTACATTATATAACGATACCTATTTCATTATATAAGGGCTACCTA
29769 TTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTT
521 TTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTT
29834 TTTTTAAAACTTATGTAATTTATGTTTCAATTTTTTAACAGTGTTTCATGTTTTCCACCTACAAT
586 TTTTTAAAACTTATGTAATTTATGTTTCAATTTTTTAACAGTGTTTCATGTTTTCCACCTACAAT
*
29899 ATTGATTTAATAATTTCATTTGCAGAAAAAATTATTTGCTTGTTTTTATATTTTATAAAATATTA
651 ATTGATTTAATAATTTCATTTGCAGAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTA
29964 TTTAGAATTTTTAATTTAATAATAATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAA
716 TTTAGAATTTTTAATTTAATAATAATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAA
30029 TTACTAAATTAATATCTTAAAACTCACTCAAAAATTAATATTAAATTAATGTTTTCCACAGTGAA
781 TTACTAAATTAATATCTTAAAACTCACTCAAAAATTAATATTAAATTAATGTTTTCCACAGTGAA
30094 AAAAGTATGGAC
846 AAAAGTATGGAC
30106 ACTTTTATAAAAAGGATAGAAACTTTACAATATAACCACTACCTATTACATTATATAAACGATAC
1 ACTTTTATAAAAAGGATAGAAACTTTACAATATAACCACTACCTATTACATTATATAAACGATAC
*
30171 CTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGAAAGTATCCAT
66 CTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCAT
30236 ACTTTTTAT-AAAAGGATCGATAC-TTTTTTAAAACTTATGTAATTTATGTTTCAA-TTTTTTAA
131 ACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTTTTTAA
30298 CATTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATTATTTG
196 CATTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATTATTTG
30363 ATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATACCGTAAC
261 ATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATACCGTAAC
30428 GTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGAT
326 GTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGAT
30493 AACCTTAAATTAATGTTTTCCACATTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGACACT
391 AACCTTAAATTAATGTTTTCCACATTG-AAAAAGTATGGACACTTTTATAAAAAGGATAGACACT
30558 TTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTTCATTATATAAGGGCTACC
455 TTACAATATAACCACTACCTATTACATTATAT-AACGATACCTATTTCATTATATAAGGGCTACC
30623 TATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAC
519 TATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAC
30688 TTTTTTTAAAACTTATGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTAC
584 TTTTTTTAAAACTTATGTAATTTATGTTTCAA-TTTTTTAACAGTGTTTCATGTTTTCCACCTAC
30753 AATATTGATTTAATAATTTCATTTGCAGAAAAAATTATTTGATTGTTTTTATATTTTAT-AAATA
648 AATATTGATTTAATAATTTCATTTGCAGAAAAAATTATTTGATTGTTTTTATATTTTATAAAATA
30817 TTATTTAGAATTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCC
713 TTATTTAGAATTTTTAATTTAATAAT-A-ATATACCGTAACGTAAAAAATAAATCATTAGACGCC
30882 TATAATTACTAAATTAATATCTTAAAACTCACTCAAAAATTAATATTAAATTAATGTTTTCCACA
776 TATAATTACTAAATTAATATCTTAAAACTCACTCAAAAATTAATATTAAATTAATGTTTTCCACA
30947 GTGAAAAAAGTATGGAC
841 GTGAAAAAAGTATGGAC
30964 ACTTTTATAAAAAGGATAGAAACTTTACAATATAACCACTACCTATTACATTATATAAACGATAC
1 ACTTTTATAAAAAGGATAGAAACTTTACAATATAACCACTACCTATTACATTATATAAACGATAC
*
31029 CTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTTCAT
66 CTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCAT
31094 ACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTTTTTAA
131 ACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTTTTTAA
31159 CA
196 CA
31161 GTGTACTGCG
Statistics
Matches: 1042, Mismatches: 5, Indels: 12
0.98 0.00 0.01
Matches are distributed among these distances:
854 230 0.22
855 100 0.10
856 174 0.17
857 228 0.22
858 255 0.24
859 14 0.01
860 31 0.03
861 10 0.01
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.40
Consensus pattern (857 bp):
ACTTTTATAAAAAGGATAGAAACTTTACAATATAACCACTACCTATTACATTATATAAACGATAC
CTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCAT
ACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTTTTTAA
CATTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATTATTTG
ATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATACCGTAAC
GTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGAT
AACCTTAAATTAATGTTTTCCACATTGAAAAAGTATGGACACTTTTATAAAAAGGATAGACACTT
TACAATATAACCACTACCTATTACATTATATAACGATACCTATTTCATTATATAAGGGCTACCTA
TTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTT
TTTTTAAAACTTATGTAATTTATGTTTCAATTTTTTAACAGTGTTTCATGTTTTCCACCTACAAT
ATTGATTTAATAATTTCATTTGCAGAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTA
TTTAGAATTTTTAATTTAATAATAATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAA
TTACTAAATTAATATCTTAAAACTCACTCAAAAATTAATATTAAATTAATGTTTTCCACAGTGAA
AAAAGTATGGAC
Found at i:33953 original size:184 final size:184
Alignment explanation
Indices: 33644--33987 Score: 553
Period size: 184 Copynumber: 1.9 Consensus size: 184
33634 TTCAAATTAC
* *
33644 CGACACTTTTTTAAATGGTATCGACACATTTTTATTCCAATGGGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTATTCCAATAGGGACATAAAGTACCGACACAAT
* * *
33709 ATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTATAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
*
33774 ATATTACAAAATTATCTATTACATTATAATTATGGGTTGCGATGTGTAAAATGT
131 ATATTACAAAATTACCTATTACATTATAATTATGGGTTGCGATGTGTAAAATGT
* * * *
33828 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGTACATAAAGTACCGACACACT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTATTCCAATAGGGACATAAAGTACCGACACAAT
*
33893 ATTAAAAAGTGTCGATATAGGTTATAGACCTATTCGCGCATAAGACCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTATAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
* * **
33958 ATATTGCAAATTTACCTATTTTATTATAAT
131 ATATTACAAAATTACCTATTACATTATAAT
33988 ATGTTGAAAG
Statistics
Matches: 145, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
184 145 1.00
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (184 bp):
CGACACTTTTTTAAATCGTATCGACACATTTTTATTCCAATAGGGACATAAAGTACCGACACAAT
ATTAAAAAGTGTCGATATAGGTTATAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
ATATTACAAAATTACCTATTACATTATAATTATGGGTTGCGATGTGTAAAATGT
Found at i:35463 original size:3 final size:3
Alignment explanation
Indices: 35455--35541 Score: 84
Period size: 3 Copynumber: 29.0 Consensus size: 3
35445 ACTTGTTTGG
* * * **
35455 ATC ATC ATC TTC ATC ATC ATC ATC ATC ATC GTC ATC ATC TTC ATC GCC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * * * *
35503 AGC TTC ATC GTC ATC ATC ATC ATC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
35542 GTCAGCTTCA
Statistics
Matches: 65, Mismatches: 19, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.24, C:0.34, G:0.06, T:0.36
Consensus pattern (3 bp):
ATC
Found at i:35478 original size:18 final size:18
Alignment explanation
Indices: 35455--35556 Score: 87
Period size: 18 Copynumber: 5.7 Consensus size: 18
35445 ACTTGTTTGG
35455 ATCATCATCTTCATCATC
1 ATCATCATCTTCATCATC
* *
35473 ATCATCATCATCGTCATC
1 ATCATCATCTTCATCATC
* ** * *
35491 ATCTTCATCGCCAGCTTC
1 ATCATCATCTTCATCATC
* *
35509 ATCGTCATCATCATCATC
1 ATCATCATCTTCATCATC
* *
35527 ATCGTCATCTTCATCGTC
1 ATCATCATCTTCATCATC
* *
35545 AGCTTCATCTTC
1 ATCATCATCTTC
35557 TGCGACCGCT
Statistics
Matches: 67, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 67 1.00
ACGTcount: A:0.23, C:0.34, G:0.07, T:0.36
Consensus pattern (18 bp):
ATCATCATCTTCATCATC
Found at i:35522 original size:42 final size:42
Alignment explanation
Indices: 35463--35553 Score: 146
Period size: 42 Copynumber: 2.2 Consensus size: 42
35453 GGATCATCAT
*
35463 CTTCATCATCATCATCATCATCGTCATCATCTTCATCGCCAG
1 CTTCATCATCATCATCATCATCATCATCATCTTCATCGCCAG
* * *
35505 CTTCATCGTCATCATCATCATCATCGTCATCTTCATCGTCAG
1 CTTCATCATCATCATCATCATCATCATCATCTTCATCGCCAG
35547 CTTCATC
1 CTTCATC
35554 TTCTGCGACC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.22, C:0.35, G:0.08, T:0.35
Consensus pattern (42 bp):
CTTCATCATCATCATCATCATCATCATCATCTTCATCGCCAG
Found at i:37571 original size:197 final size:199
Alignment explanation
Indices: 37008--38692 Score: 3196
Period size: 198 Copynumber: 8.5 Consensus size: 199
36998 TTTAAATTAG
*
37008 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCATCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
37073 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATAC-TTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
37137 CGACAC-TTTT-TATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGG-AAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
37199 AAAA
196 AAAA
37203 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
37268 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
37333 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTAATTCTGG-AAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
37397 AAAA
196 AAAA
37401 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
37466 ATTGTA-CGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
37530 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
37595 AAAA
196 AAAA
*
37599 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
37664 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
37729 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
37794 AAAA
196 AAAA
* *
37798 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGCCATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
37863 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATAC-TTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
37927 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
37992 AAAA
196 AAAA
*
37996 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
38061 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATAC-TTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
38125 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
38190 AAAA
196 AAAA
38194 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCAT-AAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
38258 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
38323 CGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGG-AAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
38386 AAAA
196 AAAA
*
38390 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
38455 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
38520 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTAATTCTGG-AAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
38584 AAAA
196 AAAA
38588 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
38653 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATA
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATA
38693 TGGATCGACA
Statistics
Matches: 1469, Mismatches: 13, Indels: 13
0.98 0.01 0.01
Matches are distributed among these distances:
195 105 0.07
196 88 0.06
197 309 0.21
198 735 0.50
199 232 0.16
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (199 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
AAAA
Found at i:38887 original size:19 final size:19
Alignment explanation
Indices: 38841--38889 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
38831 TTATATTCAC
*
38841 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
38860 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
38879 ATACAAAATTA
1 ATACAAAATTA
38890 ACTCGACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:43076 original size:19 final size:19
Alignment explanation
Indices: 43031--43076 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
43021 TCCGGTATCA
43031 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
43050 TTGATACCGG-TTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
43070 TTTTACC
1 TTTTACC
43077 TGTTATATCG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 14 0.61
20 9 0.39
ACGTcount: A:0.20, C:0.17, G:0.11, T:0.52
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:43227 original size:20 final size:20
Alignment explanation
Indices: 43198--43247 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
43188 CACTTTTAAA
*
43198 TTTACCGGTTTTATCAT-TT
1 TTTACTGGTTTTATCATATT
43217 TGTTACTGGTTTTATCATATT
1 T-TTACTGGTTTTATCATATT
43238 TTTACCTGGT
1 TTTA-CTGGT
43248 ATATCGTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 1 0.04
20 18 0.67
21 8 0.30
ACGTcount: A:0.16, C:0.14, G:0.14, T:0.56
Consensus pattern (20 bp):
TTTACTGGTTTTATCATATT
Found at i:44307 original size:27 final size:29
Alignment explanation
Indices: 44268--44332 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 29
44258 CTCCTAAAAC
*
44268 TTAAAAATTATAA-TTAGATCCTTAAAGTT
1 TTAAAAA-TATAATTTAGATCCTAAAAGTT
* *
44297 TTAAAAA-ATAATTTAGCTCCTAAAATTT
1 TTAAAAATATAATTTAGATCCTAAAAGTT
*
44325 TTAGAAAT
1 TTAAAAAT
44333 TCATATTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
27 4 0.13
28 19 0.63
29 7 0.23
ACGTcount: A:0.46, C:0.08, G:0.06, T:0.40
Consensus pattern (29 bp):
TTAAAAATATAATTTAGATCCTAAAAGTT
Found at i:47080 original size:2 final size:2
Alignment explanation
Indices: 47073--47140 Score: 136
Period size: 2 Copynumber: 34.0 Consensus size: 2
47063 TATAACAGAA
47073 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
47115 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
47141 TAATAATAGT
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 66 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:51523 original size:42 final size:42
Alignment explanation
Indices: 51446--51550 Score: 147
Period size: 42 Copynumber: 2.5 Consensus size: 42
51436 ATAGGTCAAG
* *
51446 ATCTATAGCGGCGTTTTTGAAACAAACGCCACAAAATGTCGAT
1 ATCTATAGCGGCG-TTTTGGAACAAACGCCACAAAAAGTCGAT
** * *
51489 ATCTATAGCAACGTTTTGGAACAAACGCCGCAAAAAGTCTAT
1 ATCTATAGCGGCGTTTTGGAACAAACGCCACAAAAAGTCGAT
51531 ATCTATAGCGGCGTTTTGGA
1 ATCTATAGCGGCGTTTTGGA
51551 GCGAAAGGTC
Statistics
Matches: 54, Mismatches: 8, Indels: 1
0.86 0.13 0.02
Matches are distributed among these distances:
42 43 0.80
43 11 0.20
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (42 bp):
ATCTATAGCGGCGTTTTGGAACAAACGCCACAAAAAGTCGAT
Found at i:51771 original size:43 final size:42
Alignment explanation
Indices: 51700--51817 Score: 112
Period size: 43 Copynumber: 2.8 Consensus size: 42
51690 CCGCTAAAGT
* * * *
51700 TAGCGGCGTTTTTTAAAAAATGTCGCAATAGG-TTACAACATA
1 TAGCGGCGTTTTCTGAAAAACGCCGCAATAGGATT-CAACATA
**** *
51742 TAGCGGCGTTTTCTGAACAAACGCCGCAATAGGATTTGTTATT
1 TAGCGGCGTTTTCTGAA-AAACGCCGCAATAGGATTCAACATA
*
51785 TAGCGGCGTTTTTCAGAAAAACGCCGCAATAGG
1 TAGCGGCG-TTTTCTGAAAAACGCCGCAATAGG
51818 CGTTGATGTT
Statistics
Matches: 63, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
42 15 0.24
43 38 0.60
44 10 0.16
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.29
Consensus pattern (42 bp):
TAGCGGCGTTTTCTGAAAAACGCCGCAATAGGATTCAACATA
Found at i:51835 original size:43 final size:44
Alignment explanation
Indices: 51745--51845 Score: 127
Period size: 43 Copynumber: 2.4 Consensus size: 44
51735 CAACATATAG
* * * *
51745 CGGCG-TTTTCTGAACAAACGCCGCAATAGGATTTGTTATTTAG
1 CGGCGTTTTTCAGAACAAACGCCGCAATAGGAGTTGATATTTAA
* *
51788 CGGCGTTTTTCAGAA-AAACGCCGCAATAGGCGTTGATGTTTAA
1 CGGCGTTTTTCAGAACAAACGCCGCAATAGGAGTTGATATTTAA
51831 CGGCGTTTTT-AGAAC
1 CGGCGTTTTTCAGAAC
51846 GCCGCAAATG
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
42 4 0.08
43 38 0.76
44 8 0.16
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.31
Consensus pattern (44 bp):
CGGCGTTTTTCAGAACAAACGCCGCAATAGGAGTTGATATTTAA
Found at i:52092 original size:43 final size:42
Alignment explanation
Indices: 52013--52143 Score: 163
Period size: 43 Copynumber: 3.0 Consensus size: 42
52003 TTCTAGTGCA
* * * *
52013 AAACGCCGCAAAAGGTCAAACCTATAACGGCATTTTTGGAAAC
1 AAACG-CGCAAAAGGTCAGATCTATAGCGGCATTTTTGGATAC
* *
52056 AAACGTCGCAAAAGGTCAGATCTAGAGCGGCGTTTTTGGATAC
1 AAACG-CGCAAAAGGTCAGATCTATAGCGGCATTTTTGGATAC
* *
52099 AAATGCTGCAAAAAGTCAGATCTATAGCGGCATTTTTGGATAC
1 AAACGC-GCAAAAGGTCAGATCTATAGCGGCATTTTTGGATAC
52142 AA
1 AA
52144 CGCCGCTATT
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
42 1 0.01
43 75 0.99
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.23
Consensus pattern (42 bp):
AAACGCGCAAAAGGTCAGATCTATAGCGGCATTTTTGGATAC
Found at i:52296 original size:25 final size:26
Alignment explanation
Indices: 52268--52323 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 26
52258 TTTTAATTAA
52268 GACACAAGTTATGC-AAAAAATACTT
1 GACACAAGTTATGCAAAAAAATACTT
52293 GACACAAGTTATGCAAAAAAATACTT
1 GACACAAGTTATGCAAAAAAATACTT
*
52319 AACAC
1 GACAC
52324 GATAAATAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 14 0.48
26 15 0.52
ACGTcount: A:0.50, C:0.18, G:0.11, T:0.21
Consensus pattern (26 bp):
GACACAAGTTATGCAAAAAAATACTT
Found at i:54835 original size:21 final size:19
Alignment explanation
Indices: 54809--54847 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 19
54799 GGGGGTTTTC
54809 AAGGAAGAATTAGGGAAGAAG
1 AAGGAAG-ATT-GGGAAGAAG
54830 AAGGAAGATTGGGAAGAA
1 AAGGAAGATTGGGAAGAA
54848 AGGTTCAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.44
20 3 0.17
21 7 0.39
ACGTcount: A:0.51, C:0.00, G:0.38, T:0.10
Consensus pattern (19 bp):
AAGGAAGATTGGGAAGAAG
Found at i:55255 original size:52 final size:52
Alignment explanation
Indices: 55192--55349 Score: 291
Period size: 52 Copynumber: 3.1 Consensus size: 52
55182 TAACAACAAA
55192 ATACATTATAATTTAGAAACATTAAAGTACTTATGCATAAACAGTCTTCACC
1 ATACATTATAATTTAGAAACATTAAAGTACTTATGCATAAACAGTCTTCACC
* *
55244 ATACATTATAATTTAGAAACATTAAAGTACTTATGCATAAATAGTCTTCAGC
1 ATACATTATAATTTAGAAACATTAAAGTACTTATGCATAAACAGTCTTCACC
55296 ATACATTATAATTTAGAAACATTAAAGTACTTATGCAT-AACAGTCTTCACC
1 ATACATTATAATTTAGAAACATTAAAGTACTTATGCATAAACAGTCTTCACC
55347 ATA
1 ATA
55350 TTGTTCAGTA
Statistics
Matches: 102, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
51 14 0.14
52 88 0.86
ACGTcount: A:0.42, C:0.16, G:0.08, T:0.34
Consensus pattern (52 bp):
ATACATTATAATTTAGAAACATTAAAGTACTTATGCATAAACAGTCTTCACC
Found at i:56495 original size:38 final size:41
Alignment explanation
Indices: 56405--56495 Score: 125
Period size: 38 Copynumber: 2.3 Consensus size: 41
56395 TTTATACAAA
* **
56405 AAACGCCGCTAATTTACCACTCTATTGCGACGTTTTTGGTAT
1 AAACGCCGCTAAATTACCAC-CTATTGCGACGTTTTTACTAT
56447 AAACGCCGCTAAATTA-CA-CTATTGCGACG-TTTTACTAT
1 AAACGCCGCTAAATTACCACCTATTGCGACGTTTTTACTAT
56485 AAACGCCGCTA
1 AAACGCCGCTA
56496 TTGTTTAACC
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
38 18 0.39
39 11 0.24
41 2 0.04
42 15 0.33
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (41 bp):
AAACGCCGCTAAATTACCACCTATTGCGACGTTTTTACTAT
Found at i:56884 original size:41 final size:42
Alignment explanation
Indices: 56766--57168 Score: 439
Period size: 41 Copynumber: 9.7 Consensus size: 42
56756 TGCTGTAGTA
* ** *
56766 TATAGCGGCATTTTTGGAACAAACGCCGCGGAAGGTCGAGATC
1 TATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGGTC-ATATC
* * *
56809 TATAGCGGCATTTTTGGAACAAACACCGCAAAAGGTCATAAC
1 TATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGGTCATATC
** *
56851 TATAG-AACATTTTTGGATACAAACGCCGC-AAAGGTCATATC
1 TATAGCGGCGTTTTTGGA-ACAAACGCCGCAAAAGGTCATATC
* * *
56892 TATAGCGACGTTTTTGGAATAAACG-CGCAAAAGGTCAAGATC
1 TATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGGTC-ATATC
* * *
56934 TATAGCGGC-ATTTTGGAA-TAAC-CCACAAAAGGTCATATC
1 TATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGGTCATATC
* * *
56973 AATAGCGACGTTTTTGGAA-TAACGCCGCAAAAGGTCATATC
1 TATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGGTCATATC
*
57014 TATAGCGGCGTTTTTGGATACAAACGCCGTAAAAGGTCATATC
1 TATAGCGGCGTTTTTGGA-ACAAACGCCGCAAAAGGTCATATC
* * * * *
57057 TGTATCTGTGTTTTTGGAACAAACGCCACAAAA-GTCATATC
1 TATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGGTCATATC
*
57098 TATAGCAG-GTTTTTGGATACAAACGCCGCAAAA-GTCATATC
1 TATAGCGGCGTTTTTGGA-ACAAACGCCGCAAAAGGTCATATC
*
57139 TATAGCAGCGTTTTTGGATACAAACGCCGC
1 TATAGCGGCGTTTTTGGA-ACAAACGCCGC
57169 TAACCTTTCT
Statistics
Matches: 313, Mismatches: 36, Indels: 23
0.84 0.10 0.06
Matches are distributed among these distances:
39 11 0.04
40 37 0.12
41 122 0.39
42 75 0.24
43 68 0.22
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (42 bp):
TATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGGTCATATC
Found at i:57143 original size:125 final size:123
Alignment explanation
Indices: 56766--57168 Score: 476
Period size: 125 Copynumber: 3.2 Consensus size: 123
56756 TGCTGTAGTA
* ** *
56766 TATAGCGGCATTTTTGGAACAAACGCCGCGGAAGGTCGAGATCTATAGCGGCATTTTTGGAACAA
1 TATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGGTCAAGATCTATAGCGG--TTTTTGGAACAA
* * * * *
56831 ACACCGCAAAAGGTCATAACTATAGAACATTTTTGGATACAAACGCCGCAAAGGTCATATC
64 AC-CCACAAAAGGTCATATCTATAGCACGTTTTTGGATACAAACGCCGCAAAAGTCATATC
* * * *
56892 TATAGCGACGTTTTTGGAATAAACG-CGCAAAAGGTCAAGATCTATAGCGGCATTTTGGAA-TAA
1 TATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGGTCAAGATCTATAGCGG-TTTTTGGAACAAA
* *
56955 CCCACAAAAGGTCATATCAATAGCGACGTTTTTGGA-A-TAACGCCGCAAAAGGTCATATC
65 CCCACAAAAGGTCATATCTATAGC-ACGTTTTTGGATACAAACGCCGCAAAA-GTCATATC
* * * *
57014 TATAGCGGCGTTTTTGGATACAAACGCCGTAAAAGGTC-ATATCTGTATCTGTGTTTTTGGAACA
1 TATAGCGGCGTTTTTGGA-ACAAACGCCGCAAAAGGTCAAGATCTATAGC-G-GTTTTTGGAACA
*
57078 AACGCCACAAAA-GTCATATCTATAGCAGGTTTTTGGATACAAACGCCGCAAAAGTCATATC
63 AAC-CCACAAAAGGTCATATCTATAGCACGTTTTTGGATACAAACGCCGCAAAAGTCATATC
*
57139 TATAGCAGCGTTTTTGGATACAAACGCCGC
1 TATAGCGGCGTTTTTGGA-ACAAACGCCGC
57169 TAACCTTTCT
Statistics
Matches: 238, Mismatches: 29, Indels: 21
0.83 0.10 0.07
Matches are distributed among these distances:
121 11 0.05
122 45 0.19
123 27 0.11
124 37 0.16
125 76 0.32
126 42 0.18
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (123 bp):
TATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGGTCAAGATCTATAGCGGTTTTTGGAACAAAC
CCACAAAAGGTCATATCTATAGCACGTTTTTGGATACAAACGCCGCAAAAGTCATATC
Found at i:57156 original size:206 final size:207
Alignment explanation
Indices: 56767--57152 Score: 487
Period size: 206 Copynumber: 1.9 Consensus size: 207
56757 GCTGTAGTAT
* **
56767 ATAGCGGCATTTTTGGAACAAACGCCGCGGAAGGTCGAGATCTATAGCGGCATTTTTGGAACAAA
1 ATAGCGACATTTTTGGAACAAACGCCGCAAAAGGTCGAGATCTATAGCGGCATTTTTGGAACAAA
* * *
56832 CACCGCAAAAGGTCATAACTATAGAACATTTTTGGATACAAACGCCGCAAAGGTCATATCTATAG
66 CACCGCAAAAGGTCATAACTATACAACATTTTTGGATACAAACGCCACAAAAGTCATATCTATAG
* *
56897 CGACGTTTTTGGAATAAACGCGCAAAAGGTCAAGATCTATAGCGGCATTTTGGAATAACCCACAA
131 CGACGTTTTTGGAACAAACGCGCAAAAGGTCAAGATCTATAGCAGCATTTTGGAATAACCCACAA
56962 AAGGTCATATCA
196 AAGGTCATATCA
* * * *
56974 ATAGCGACGTTTTTGGAA-TAACGCCGCAAAAGGTC-ATATCTATAGCGGCGTTTTTGGATACAA
1 ATAGCGACATTTTTGGAACAAACGCCGCAAAAGGTCGAGATCTATAGCGGCATTTTTGGA-ACAA
* * * * ****
57037 ACGCCGTAAAAGGTCATATCTGTATCTGTGTTTTTGGA-ACAAACGCCACAAAAGTCATATCTAT
65 ACACCGCAAAAGGTCATAACTATA-CAACATTTTTGGATACAAACGCCACAAAAGTCATATCTAT
* * *
57101 AGC-AGGTTTTTGGATACAAACGCCGCAAAA-GTC-ATATCTATAGCAGCGTTTT
129 AGCGACGTTTTTGGA-ACAAACG-CGCAAAAGGTCAAGATCTATAGCAGCATTTT
57153 TGGATACAAA
Statistics
Matches: 152, Mismatches: 23, Indels: 10
0.82 0.12 0.05
Matches are distributed among these distances:
205 47 0.31
206 74 0.49
207 31 0.20
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.26
Consensus pattern (207 bp):
ATAGCGACATTTTTGGAACAAACGCCGCAAAAGGTCGAGATCTATAGCGGCATTTTTGGAACAAA
CACCGCAAAAGGTCATAACTATACAACATTTTTGGATACAAACGCCACAAAAGTCATATCTATAG
CGACGTTTTTGGAACAAACGCGCAAAAGGTCAAGATCTATAGCAGCATTTTGGAATAACCCACAA
AAGGTCATATCA
Done.