Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, 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: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 126 of 160
Found at i:23491939 original size:42 final size:43
Alignment explanation
Indices: 23491892--23491994 Score: 145
Period size: 45 Copynumber: 2.3 Consensus size: 43
23491882 TTTTAAGTTG
*
23491892 AGGCTCAATAACTTTAAAAATTTCAAAGGCTT-TTCTAAATAA
1 AGGCTCAATGACTTTAAAAATTTCAAAGGCTTATTCTAAATAA
*
23491934 AGGCTCAATGACTTTTTTAAAAATTTCAAAGGCTTATTCTAAATAG
1 AGGCTCAATGAC---TTTAAAAATTTCAAAGGCTTATTCTAAATAA
*
23491980 AGGCTCGATGACTTT
1 AGGCTCAATGACTTT
23491995 TTAGAAAGCT
Statistics
Matches: 54, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
42 11 0.20
43 3 0.06
45 20 0.37
46 20 0.37
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.35
Consensus pattern (43 bp):
AGGCTCAATGACTTTAAAAATTTCAAAGGCTTATTCTAAATAA
Found at i:23491962 original size:45 final size:46
Alignment explanation
Indices: 23491904--23491996 Score: 161
Period size: 46 Copynumber: 2.0 Consensus size: 46
23491894 GCTCAATAAC
23491904 TTTAAAAATTTCAAAGGCTT-TTCTAAATAAAGGCTCAATGACTTT
1 TTTAAAAATTTCAAAGGCTTATTCTAAATAAAGGCTCAATGACTTT
* *
23491949 TTTAAAAATTTCAAAGGCTTATTCTAAATAGAGGCTCGATGACTTT
1 TTTAAAAATTTCAAAGGCTTATTCTAAATAAAGGCTCAATGACTTT
23491995 TT
1 TT
23491997 AGAAAGCTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
45 20 0.44
46 25 0.56
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (46 bp):
TTTAAAAATTTCAAAGGCTTATTCTAAATAAAGGCTCAATGACTTT
Found at i:23501095 original size:22 final size:22
Alignment explanation
Indices: 23501068--23501113 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
23501058 CCTCTCGAAG
23501068 CTCATCCATTTCATATTGCTGA
1 CTCATCCATTTCATATTGCTGA
*
23501090 CTCATCCATTTCATGTTGCTGA
1 CTCATCCATTTCATATTGCTGA
23501112 CT
1 CT
23501114 AAGGTAAGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.20, C:0.28, G:0.11, T:0.41
Consensus pattern (22 bp):
CTCATCCATTTCATATTGCTGA
Found at i:23502282 original size:16 final size:16
Alignment explanation
Indices: 23502263--23502334 Score: 54
Period size: 16 Copynumber: 4.4 Consensus size: 16
23502253 AAAAGATGAT
23502263 GAAAAAAAAAAAAAAA
1 GAAAAAAAAAAAAAAA
* *
23502279 GAAAAAGAAAGAAAGAA
1 GAAAAA-AAAAAAAAAA
** * *
23502296 GAAAAAATGAGAAAAT
1 GAAAAAAAAAAAAAAA
** *
23502312 GAAAAAATGAAAAAAT
1 GAAAAAAAAAAAAAAA
23502328 GAAAAAA
1 GAAAAAA
23502335 GAGATCCAAA
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
16 32 0.70
17 14 0.30
ACGTcount: A:0.79, C:0.00, G:0.15, T:0.06
Consensus pattern (16 bp):
GAAAAAAAAAAAAAAA
Found at i:23502284 original size:17 final size:17
Alignment explanation
Indices: 23502264--23502302 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
23502254 AAAGATGATG
23502264 AAAAAAAAAAAAAAAGA
1 AAAAAAAAAAAAAAAGA
* * *
23502281 AAAAGAAAGAAAGAAGA
1 AAAAAAAAAAAAAAAGA
23502298 AAAAA
1 AAAAA
23502303 TGAGAAAATG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAAAAAAGA
Found at i:23502310 original size:8 final size:8
Alignment explanation
Indices: 23502296--23502334 Score: 69
Period size: 8 Copynumber: 4.9 Consensus size: 8
23502286 AAAGAAAGAA
23502296 GAAAAAAT
1 GAAAAAAT
*
23502304 GAGAAAAT
1 GAAAAAAT
23502312 GAAAAAAT
1 GAAAAAAT
23502320 GAAAAAAT
1 GAAAAAAT
23502328 GAAAAAA
1 GAAAAAA
23502335 GAGATCCAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.10
Consensus pattern (8 bp):
GAAAAAAT
Found at i:23503663 original size:42 final size:41
Alignment explanation
Indices: 23503586--23504116 Score: 769
Period size: 40 Copynumber: 13.0 Consensus size: 41
23503576 GTCTAGGAGT
*
23503586 ATTTACTTTTCCAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
*
23503626 ATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
23503668 ATTTATTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTA-CTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
23503710 ATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
*
23503750 ATTTACTTTTCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
23503791 ATTTACTTTTCAAAGTTCGT--TACCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
23503831 ATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
*
23503871 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
23503912 ATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
23503954 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
* *
23503995 ATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCA
1 ATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
23504037 ATTTACTTTCCAAAGTCCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGT-CGTGGTGCCTCTGTTTAGAGGAGCA
* * *
23504077 ATTTAC-TTTCAAAAGTCGTTGAGTCTCTGTTTAGAGGAGC
1 ATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAGAGGAGC
23504117 TTCGGCCAAA
Statistics
Matches: 456, Mismatches: 19, Indels: 31
0.90 0.04 0.06
Matches are distributed among these distances:
39 14 0.03
40 153 0.34
41 137 0.30
42 148 0.32
43 4 0.01
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.37
Consensus pattern (41 bp):
ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
Found at i:23503787 original size:81 final size:81
Alignment explanation
Indices: 23503586--23504116 Score: 763
Period size: 81 Copynumber: 6.5 Consensus size: 81
23503576 GTCTAGGAGT
*
23503586 ATTTACTTTTCCAAGTTCGT--TGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGT
1 ATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTT-CAAAGTCGT-GT
*
23503649 ACCTCTGTTTAGAGGAGCA
63 GCCTCTGTTTAGAGGAGCA
*
23503668 ATTTATTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGT-TG
1 ATTTA-CTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAG-TCGTGTG
23503732 CCTCTGTTTAGAGGAGCA
64 CCTCTGTTTAGAGGAGCA
* *
23503750 ATTTACTTTTCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGT-TAC
1 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAG-TCGTGTGC
23503814 CTCTGTTTAGAGGAGCA
65 CTCTGTTTAGAGGAGCA
23503831 ATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTG
1 ATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGT-GTG
*
23503894 CCTCTGTTGAGAGGAGCA
64 CCTCTGTTTAGAGGAGCA
*
23503912 ATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTG
1 ATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGT-GTG
*
23503977 CCTCTGTTGAGAGGAGCA
64 CCTCTGTTTAGAGGAGCA
* * *
23503995 ATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTACTTTCCAAAGTCCGT-TG
1 ATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGT-CGTGTG
23504059 CCTCTGTTTAGAGGAGCA
64 CCTCTGTTTAGAGGAGCA
* * *
23504077 ATTTAC-TTTCAAAAGTCGTTGAGTCTCTGTTTAGAGGAGC
1 ATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAGAGGAGC
23504117 TTCGGCCAAA
Statistics
Matches: 419, Mismatches: 18, Indels: 25
0.91 0.04 0.05
Matches are distributed among these distances:
79 4 0.01
80 35 0.08
81 147 0.35
82 66 0.16
83 130 0.31
84 37 0.09
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.37
Consensus pattern (81 bp):
ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGTGCC
TCTGTTTAGAGGAGCA
Found at i:23504140 original size:9 final size:9
Alignment explanation
Indices: 23504123--23504210 Score: 65
Period size: 9 Copynumber: 9.7 Consensus size: 9
23504113 GAGCTTCGGC
23504123 CAAAAAAAA
1 CAAAAAAAA
*
23504132 -AACAAAAA
1 CAAAAAAAA
*
23504140 -AACAAAAA
1 CAAAAAAAA
23504148 CAAAAAAAA
1 CAAAAAAAA
*
23504157 TCAAAAAAAT
1 -CAAAAAAAA
23504167 CAAAAATCAAA
1 CAAAAA--AAA
*
23504178 AAAATAAAAA
1 CAAA-AAAAA
*
23504188 CAAAAATAA
1 CAAAAAAAA
*
23504197 -AAAAAAAT
1 CAAAAAAAA
23504205 CAAAAA
1 CAAAAA
23504211 TAAAAATGTT
Statistics
Matches: 64, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
8 21 0.33
9 22 0.34
10 14 0.22
11 5 0.08
12 2 0.03
ACGTcount: A:0.83, C:0.10, G:0.00, T:0.07
Consensus pattern (9 bp):
CAAAAAAAA
Found at i:23504154 original size:16 final size:15
Alignment explanation
Indices: 23504127--23504216 Score: 83
Period size: 16 Copynumber: 5.7 Consensus size: 15
23504117 TTCGGCCAAA
23504127 AAAAAAACAAAAAAAC
1 AAAAAAA-AAAAAAAC
*
23504143 AAAAACAAAAAAAATC
1 AAAAA-AAAAAAAAAC
* *
23504159 AAAAAAATCAAAAATC
1 AAAAAAA-AAAAAAAC
*
23504175 -AAAAAAATAAAAAC
1 AAAAAAAAAAAAAAC
23504189 AAAAATAAAAAAAAATC
1 AAAAA-AAAAAAAAA-C
23504206 AAAAATAAAAA
1 AAAAA-AAAAA
23504217 TGTTGAGCTG
Statistics
Matches: 63, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
14 5 0.08
15 12 0.19
16 32 0.51
17 14 0.22
ACGTcount: A:0.83, C:0.09, G:0.00, T:0.08
Consensus pattern (15 bp):
AAAAAAAAAAAAAAC
Found at i:23504216 original size:1 final size:1
Alignment explanation
Indices: 23504124--23504203 Score: 52
Period size: 1 Copynumber: 80.0 Consensus size: 1
23504114 AGCTTCGGCC
* * * ** ** ** * *
23504124 AAAAAAAAAACAAAAAAACAAAAACAAAAAAAATCAAAAAAATCAAAAATCAAAAAAATAAAAAC
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
23504189 AAAAATAAAAAAAAA
1 AAAAAAAAAAAAAAA
23504204 TCAAAAATAA
Statistics
Matches: 58, Mismatches: 21, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 58 1.00
ACGTcount: A:0.85, C:0.09, G:0.00, T:0.06
Consensus pattern (1 bp):
A
Found at i:23504217 original size:6 final size:6
Alignment explanation
Indices: 23504177--23504217 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
23504167 CAAAAATCAA
*
23504177 AAAAAT AAAAAC AAAAAT -AAAA- AAAAAT CAAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT -AAAAAT AAAAAT
23504218 GTTGAGCTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
5 8 0.27
6 16 0.53
7 6 0.20
ACGTcount: A:0.83, C:0.05, G:0.00, T:0.12
Consensus pattern (6 bp):
AAAAAT
Found at i:23505028 original size:31 final size:31
Alignment explanation
Indices: 23504993--23505063 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 31
23504983 AATTTTCAGA
* ** *
23504993 TTCCGGCGAAAATTCCGGCGAAGTTTGAATT
1 TTCCGGCGAAAATTCCGGCCAACATTGAAGT
*
23505024 TTCCGGCAAAAATTCCGGCCAACATTGAAGT
1 TTCCGGCGAAAATTCCGGCCAACATTGAAGT
23505055 TTCCGGCGA
1 TTCCGGCGA
23505064 CCTGCCCAGT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (31 bp):
TTCCGGCGAAAATTCCGGCCAACATTGAAGT
Found at i:23505149 original size:20 final size:20
Alignment explanation
Indices: 23505124--23505161 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
23505114 ACTTCCGGTG
*
23505124 AAATTTCCAGATTCCGGCGA
1 AAATTTCCAGAATCCGGCGA
*
23505144 AAATTTTCAGAATCCGGC
1 AAATTTCCAGAATCCGGC
23505162 ACCGGTGTTC
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:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (20 bp):
AAATTTCCAGAATCCGGCGA
Found at i:23505535 original size:24 final size:24
Alignment explanation
Indices: 23505490--23505535 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
23505480 TCAGGTTTTT
* * *
23505490 TTTTTTTTTTTTTTTTTCTTTGAA
1 TTTTTTTTTCTTTGTTTATTTGAA
23505514 TTTTTTTTTCTTTGTTTATTTG
1 TTTTTTTTTCTTTGTTTATTTG
23505536 TTTATTTTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.07, C:0.04, G:0.07, T:0.83
Consensus pattern (24 bp):
TTTTTTTTTCTTTGTTTATTTGAA
Found at i:23505715 original size:57 final size:57
Alignment explanation
Indices: 23505634--23505972 Score: 430
Period size: 57 Copynumber: 5.7 Consensus size: 57
23505624 AAAATTCCAA
23505634 AAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
1 AAAAA-ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
* * * *
23505692 AAAAAATATTTTTGGGGAAAAGTTGAAAATATCAATTTTCCTCAGAAATAAATTTCAAAAAA
1 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC-----C
* *
23505754 AAAAAACATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAATTCC
1 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
* * *
23505811 AAAAACTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTCAA
1 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAA-TTTC-C
* *
23505870 AAAAAAGAGGGTTTTT-GAGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCGAAATTTTC
1 AAAAAATA---TTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--AAATTTCC
23505932 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
23505973 CTACAAAAAA
Statistics
Matches: 246, Mismatches: 20, Indels: 29
0.83 0.07 0.10
Matches are distributed among these distances:
57 97 0.39
58 8 0.03
59 37 0.15
60 1 0.00
61 2 0.01
62 95 0.39
63 3 0.01
64 3 0.01
ACGTcount: A:0.44, C:0.09, G:0.14, T:0.33
Consensus pattern (57 bp):
AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
Found at i:23505771 original size:119 final size:119
Alignment explanation
Indices: 23505632--23505972 Score: 508
Period size: 119 Copynumber: 2.8 Consensus size: 119
23505622 AAAAAATTCC
* *
23505632 AAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAA
1 AAAAAAAAACATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAA
*
23505697 ATATTTTTGGGGAAAAGTTGAAAATATCAATTTTCCTCAGAAATAAA-TTTCAAA
66 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTTC-AA
*
23505751 AAAAAAAAACATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAATTCCAAAAA
1 AAAAAAAAACATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAA
* *
23505816 CTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTCAA
66 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTTCAA
* *** *
23505870 AAAAAAGAGGGTTTTT-GAGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCGAAATTTTCA
1 AAAAAAAAACATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--AAATTTCCA
*
23505933 AAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
62 AAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
23505973 CTACAAAAAA
Statistics
Matches: 203, Mismatches: 14, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
118 2 0.01
119 152 0.75
120 4 0.02
121 45 0.22
ACGTcount: A:0.45, C:0.09, G:0.14, T:0.33
Consensus pattern (119 bp):
AAAAAAAAACATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAA
ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTTCAA
Found at i:23509509 original size:3 final size:3
Alignment explanation
Indices: 23509501--23509538 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
23509491 ATTTTTACTA
23509501 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
23509539 AAAAAATAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:23516383 original size:3 final size:3
Alignment explanation
Indices: 23516375--23516400 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
23516365 ACTGCTCTAC
23516375 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
23516401 ATCCTGAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:23527287 original size:27 final size:27
Alignment explanation
Indices: 23527225--23527287 Score: 72
Period size: 30 Copynumber: 2.2 Consensus size: 27
23527215 AGCCAGAACA
23527225 ACAGTAGCCACACCACCCACAATGACC
1 ACAGTAGCCACACCACCCACAATGACC
** *
23527252 ACAATAGTAGTTACACCACCCATAATGACC
1 AC---AGTAGCCACACCACCCACAATGACC
23527282 ACAGTA
1 ACAGTA
23527288 ATAGCCAAGC
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
27 6 0.20
30 24 0.80
ACGTcount: A:0.40, C:0.35, G:0.11, T:0.14
Consensus pattern (27 bp):
ACAGTAGCCACACCACCCACAATGACC
Found at i:23527301 original size:30 final size:30
Alignment explanation
Indices: 23527267--23527393 Score: 112
Period size: 30 Copynumber: 4.1 Consensus size: 30
23527257 AGTAGTTACA
23527267 CCACCCATAATGACCACAGTAATAGCCAAG
1 CCACCCATAATGACCACAGTAATAGCCAAG
* *
23527297 CCACCAATAATGACCAACA-TAGTAGCAACCAAG
1 CCACCCATAATGACC-ACAGTAATAG---CCAAG
** * *
23527330 CCACCCATAATGATTAGAGAAATAGCCAAG
1 CCACCCATAATGACCACAGTAATAGCCAAG
* * * * *
23527360 CCACCTACAACGACCAGAGTAGTAGCCAAG
1 CCACCCATAATGACCACAGTAATAGCCAAG
23527390 CCAC
1 CCAC
23527394 TTACAATAAC
Statistics
Matches: 77, Mismatches: 15, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
30 51 0.66
31 3 0.04
32 2 0.03
33 21 0.27
ACGTcount: A:0.41, C:0.31, G:0.15, T:0.13
Consensus pattern (30 bp):
CCACCCATAATGACCACAGTAATAGCCAAG
Found at i:23527302 original size:33 final size:33
Alignment explanation
Indices: 23527265--23527364 Score: 86
Period size: 33 Copynumber: 3.1 Consensus size: 33
23527255 ATAGTAGTTA
23527265 CACCACCCATAATGACCACAGTAATAGCCAAGC
1 CACCACCCATAATGACCACAGTAATAGCCAAGC
*
23527298 CACCA---ATAATGACCAACA-TAGTAG-CAA-C
1 CACCACCCATAATGACC-ACAGTAATAGCCAAGC
** * *
23527326 CAAGCCACCCATAATGATTAGAGAAATAGCCAAGC
1 C-A-CCACCCATAATGACCACAGTAATAGCCAAGC
23527361 CACC
1 CACC
23527365 TACAACGACC
Statistics
Matches: 52, Mismatches: 6, Indels: 18
0.68 0.08 0.24
Matches are distributed among these distances:
28 2 0.04
29 4 0.08
30 17 0.33
31 3 0.06
32 2 0.04
33 18 0.35
34 4 0.08
35 2 0.04
ACGTcount: A:0.42, C:0.32, G:0.13, T:0.13
Consensus pattern (33 bp):
CACCACCCATAATGACCACAGTAATAGCCAAGC
Found at i:23527399 original size:30 final size:30
Alignment explanation
Indices: 23527352--23527428 Score: 102
Period size: 30 Copynumber: 2.6 Consensus size: 30
23527342 ATTAGAGAAA
* *
23527352 TAGCCAAGCCACCTACAACGACCAGAGTAG
1 TAGCCAAGCCACCTACAACAACCAGAGCAG
* *
23527382 TAGCCAAGCCACTTACAATAACCAGAGCAG
1 TAGCCAAGCCACCTACAACAACCAGAGCAG
23527412 TAGCCACA-CCACCTACA
1 TAGCCA-AGCCACCTACA
23527429 TAGACTATAC
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
30 40 0.98
31 1 0.02
ACGTcount: A:0.38, C:0.35, G:0.16, T:0.12
Consensus pattern (30 bp):
TAGCCAAGCCACCTACAACAACCAGAGCAG
Found at i:23529715 original size:486 final size:488
Alignment explanation
Indices: 23528761--23529741 Score: 1506
Period size: 486 Copynumber: 2.0 Consensus size: 488
23528751 AATGTGGAAA
* * * * *
23528761 CAATTTACAAACACTCAATAGCTAAACTAACTTGCAATGAGATGACAAAAAGATTTGAGCAAATG
1 CAATTTACAAACAATCAAAAGCTAAACTAACTTGCAATAAGATGACAAAAAGATTTAAACAAATG
* *
23528826 GTTAGAAACAAAAAGAAAAAACAATTAGCAGATATTTTTACATTCAAAAAATCAAAACCACCAAA
66 GCTAGAAACAAAAAGAAAAAACAATCAGCAGA-ATTTTTACATTCAAAAAATCAAAACCACCAAA
* *
23528891 TTTGGGTAGCATATAACAAGGATCTAAACTGGGACACATAGTAGTAATTGCTTTCATTTCATTAC
130 TTTAGGTAGCATATAACAAGGATCTAAACTAGGACACATAGTAGTAATTGCTTTCATTTCATTAC
* * * * *
23528956 TTTAATCCTTACAGTAGTTTAGAACAAAATATACAATCTTTCCATAAATTCTTCAAAAATTTCAA
195 ATGAAACCTTACAATAGTTTAGAACAAAATATACAATCCTTCCATAAATTCTTCAAAAATTTCAA
* * * **
23529021 TCTATAATAAAATAAACCCTAAAATGAAAATGAAAAACACCATCCAAGATAGTAGCAACACAATC
260 TCTACAATAAAATAAACCCTAAAATGAAAATGAAAAACACCATCCAAAACAACAGCAACACAATC
*
23529086 TTGTAATACCATATTAATCTTTGACCCTTTGTTGCCAAATCCTTGTAGGATTTTTTTTTCATTTT
325 TTGTAATACCATATTAATCTTTGACCCTTTGTTGCCAAATCCTTATAGGATTTTTTTTTCATTTT
* * *
23529151 CAGAACCCGAATTTTATTCAAAAGCCTATTAACTTCATTATTATTGTAATTTTCCTTCAATGCAG
390 CAAAACCCAAATTTTATTCAAAAGCCTATTAACTTCATTATTATTGCAATTTTCCTTCAATGCAG
*
23529216 TATTTTCTTTCCTCAACTCTTTATTCTTAGCCAG
455 TATTTTCTTTCCTCAACTCTTTATTCTCAGCCAG
23529250 CAATTTACAAACAATCAAAAGCTAAACTAACTTGCAATAAGATGACAAAAAGATTTAAACAAATG
1 CAATTTACAAACAATCAAAAGCTAAACTAACTTGCAATAAGATGACAAAAAGATTTAAACAAATG
* * *
23529315 GCTAGAAAC-AAAAGGAAAAACAATCAGTAG-ATTTTTACATTCAAAGAATCAAAACCACCAAAT
66 GCTAGAAACAAAAAGAAAAAACAATCAGCAGAATTTTTACATTCAAAAAATCAAAACCACCAAAT
* *
23529378 TTAGGTAGCATATAACAAGGATTTAAACTAGGACACATAGTAGTAGTTGCTTTCATTTCATTACA
131 TTAGGTAGCATATAACAAGGATCTAAACTAGGACACATAGTAGTAATTGCTTTCATTTCATTACA
* * * * * *
23529443 TGAAACCTTACAATAGTTTATAACAAAATATATAGTCCTTCCATAAATTCTTGAAAATTTTCTAT
196 TGAAACCTTACAATAGTTTAGAACAAAATATACAATCCTTCCATAAATTCTTCAAAAATTTCAAT
*
23529508 CTACAATAAAATAAACCCTAAAATGAAAATGAAAAACACCATCCAAAACAACAGCAACACAATTT
261 CTACAATAAAATAAACCCTAAAATGAAAATGAAAAACACCATCCAAAACAACAGCAACACAATCT
*
23529573 TGTAATACCATATTAATCTTTGACCCTTTGTTGCCAAATCCTTATATGATTTTTTTTTTTCATTT
326 TGTAATACCATATTAATCTTTGACCCTTTGTTGCCAAATCCTTATAGGA--TTTTTTTTTCATTT
*
23529638 TCAAAACCCAAATTTTATTCAAAAGCCTATTAACTTCATTATTATTGCAATTTTCCTTTAA--C-
389 TCAAAACCCAAATTTTATTCAAAAGCCTATTAACTTCATTATTATTGCAATTTTCCTTCAATGCA
* * *
23529700 GTGATATTT-TTTCCTCAATTTTTTATTCTCAGCTAG
454 GT-AT-TTTCTTTCCTCAACTCTTTATTCTCAGCCAG
23529736 CAATTT
1 CAATTT
23529742 GTCATTTTCA
Statistics
Matches: 447, Mismatches: 41, Indels: 11
0.90 0.08 0.02
Matches are distributed among these distances:
485 2 0.00
486 285 0.64
487 3 0.01
488 89 0.20
489 68 0.15
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.33
Consensus pattern (488 bp):
CAATTTACAAACAATCAAAAGCTAAACTAACTTGCAATAAGATGACAAAAAGATTTAAACAAATG
GCTAGAAACAAAAAGAAAAAACAATCAGCAGAATTTTTACATTCAAAAAATCAAAACCACCAAAT
TTAGGTAGCATATAACAAGGATCTAAACTAGGACACATAGTAGTAATTGCTTTCATTTCATTACA
TGAAACCTTACAATAGTTTAGAACAAAATATACAATCCTTCCATAAATTCTTCAAAAATTTCAAT
CTACAATAAAATAAACCCTAAAATGAAAATGAAAAACACCATCCAAAACAACAGCAACACAATCT
TGTAATACCATATTAATCTTTGACCCTTTGTTGCCAAATCCTTATAGGATTTTTTTTTCATTTTC
AAAACCCAAATTTTATTCAAAAGCCTATTAACTTCATTATTATTGCAATTTTCCTTCAATGCAGT
ATTTTCTTTCCTCAACTCTTTATTCTCAGCCAG
Found at i:23530355 original size:3 final size:3
Alignment explanation
Indices: 23530347--23530448 Score: 87
Period size: 3 Copynumber: 36.0 Consensus size: 3
23530337 AGTACATCAC
* *
23530347 TAT TAT TA- TAT TAT TAT TAT GGTAC TA- TAT TA- TAC TA- TAT TA-
1 TAT TAT TAT TAT TAT TAT TAT --TAT TAT TAT TAT TAT TAT TAT TAT
*
23530389 TAT TAT TAT TA- TAT TA- TAT TA- TAT TAT TA- TAGT TAT TGT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT
23530431 TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT
23530449 ATCATTATCT
Statistics
Matches: 84, Mismatches: 3, Indels: 24
0.76 0.03 0.22
Matches are distributed among these distances:
2 18 0.21
3 62 0.74
4 2 0.02
5 2 0.02
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:23530433 original size:9 final size:9
Alignment explanation
Indices: 23530347--23530448 Score: 87
Period size: 8 Copynumber: 12.0 Consensus size: 9
23530337 AGTACATCAC
23530347 TATTATTA-
1 TATTATTAT
23530355 TATTATTAT
1 TATTATTAT
*
23530364 TATGGTACTA-
1 TAT--TATTAT
*
23530374 TATTA-TAC
1 TATTATTAT
23530382 TA-TATTA-
1 TATTATTAT
23530389 TATTATTAT
1 TATTATTAT
23530398 TA-TATTA-
1 TATTATTAT
23530405 TATTA-TAT
1 TATTATTAT
23530413 TATTA-TAGT
1 TATTATTA-T
*
23530422 TATTGTTAT
1 TATTATTAT
23530431 TATTATTAT
1 TATTATTAT
23530440 TATTATTAT
1 TATTATTAT
23530449 ATCATTATCT
Statistics
Matches: 80, Mismatches: 3, Indels: 21
0.77 0.03 0.20
Matches are distributed among these distances:
7 10 0.12
8 33 0.41
9 28 0.35
10 5 0.06
11 4 0.05
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (9 bp):
TATTATTAT
Found at i:23530457 original size:6 final size:6
Alignment explanation
Indices: 23530347--23530448 Score: 87
Period size: 5 Copynumber: 18.0 Consensus size: 6
23530337 AGTACATCAC
* *
23530347 TATTAT TA-TAT TATTAT TATGGTAC TA-TAT TA-TAC TA-TAT TA-TAT
1 TATTAT TATTAT TATTAT TAT--TAT TATTAT TATTAT TATTAT TATTAT
*
23530392 TATTAT TA-TAT TA-TAT TA-TAT TATTA- TAGTTAT TGTTAT TATTAT
1 TATTAT TATTAT TATTAT TATTAT TATTAT TA-TTAT TATTAT TATTAT
23530437 TATTAT TATTAT
1 TATTAT TATTAT
23530449 ATCATTATCT
Statistics
Matches: 83, Mismatches: 6, Indels: 14
0.81 0.06 0.14
Matches are distributed among these distances:
5 39 0.47
6 39 0.47
7 1 0.01
8 4 0.05
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (6 bp):
TATTAT
Found at i:23532536 original size:39 final size:39
Alignment explanation
Indices: 23532440--23532536 Score: 110
Period size: 39 Copynumber: 2.5 Consensus size: 39
23532430 AATTATTTTA
*
23532440 TTTCTT-TTCATTGTTTATACTTGCTTTATTATTCATTT
1 TTTCTTCTTCATTGTTTATACTTGCTTAATTATTCATTT
* * *
23532478 TTTCTTTTTCAATATTTATACTTGCTTAATTACTT-ATTT
1 TTTCTTCTTCATTGTTTATACTTGCTTAATTA-TTCATTT
*
23532517 GTTT-TTCTTCATTGCTTATA
1 -TTTCTTCTTCATTGTTTATA
23532537 TCTACTTAAC
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
38 6 0.12
39 38 0.78
40 5 0.10
ACGTcount: A:0.19, C:0.13, G:0.05, T:0.63
Consensus pattern (39 bp):
TTTCTTCTTCATTGTTTATACTTGCTTAATTATTCATTT
Found at i:23535275 original size:15 final size:14
Alignment explanation
Indices: 23535251--23535279 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
23535241 CTGGGGGGTA
23535251 AAGTAAAAAAATCT
1 AAGTAAAAAAATCT
23535265 AAGTAAAAAAATCT
1 AAGTAAAAAAATCT
23535279 A
1 A
23535280 TTTACCTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (14 bp):
AAGTAAAAAAATCT
Found at i:23536719 original size:121 final size:121
Alignment explanation
Indices: 23536491--23536726 Score: 305
Period size: 121 Copynumber: 2.0 Consensus size: 121
23536481 ATCACAAGTT
*
23536491 CTGATCTGAGCTCAGTCCAAATCATTTTTGTATGACTTGTGGTTTCATCCTAATAATTTATTTTC
1 CTGATCTGAGCTCAGTACAAATCATTTTTGTATGACTTGTGGTTTCATCCTAATAATTTATTTTC
* * * *
23536556 AACATCGATTGGTCCTAGTCGCTTTATTTTCTGACTCATGGTTTCATCCCAGTCAC
66 AACATCGATCGGTCCTAGTCGCTTCATCTTATGACTCATGGTTTCATCCCAGTCAC
* * * *
23536612 CTGATTTG-GCTCAGTACAGATCATTTTT-TATGACTTGTGGTTTTATCCTAATCATTTTATTTT
1 CTGATCTGAGCTCAGTACAAATCATTTTTGTATGACTTGTGGTTTCATCCTAAT-AATTTATTTT
** * * * *
23536675 TTACTTTGACTCGGTCTTAGTCGCTTCATCTTATGACTCGTGGTTTCATCCC
65 CAACATCGA-TCGGTCCTAGTCGCTTCATCTTATGACTCATGGTTTCATCCC
23536727 GACCATTTTT
Statistics
Matches: 98, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
119 23 0.23
120 32 0.33
121 43 0.44
ACGTcount: A:0.19, C:0.21, G:0.15, T:0.44
Consensus pattern (121 bp):
CTGATCTGAGCTCAGTACAAATCATTTTTGTATGACTTGTGGTTTCATCCTAATAATTTATTTTC
AACATCGATCGGTCCTAGTCGCTTCATCTTATGACTCATGGTTTCATCCCAGTCAC
Found at i:23537098 original size:86 final size:86
Alignment explanation
Indices: 23536997--23537197 Score: 242
Period size: 86 Copynumber: 2.3 Consensus size: 86
23536987 TCTATGAATT
* * *
23536997 TGGAATCTTTTCGAATTTAGAACCTTTGTGAAACTTAGAATCTTATGAATCTATCTTTCTTG-AG
1 TGGAATCTTTACGAATTTAGAACCTTTGCGAAACTTAGAATCTTATGAATATATCTTTCTTGCA-
* *
23537061 AATCTGAAAGTCCTTGCGAACC
65 AATATGAAAGTCCCTGCGAACC
* * * * *
23537083 TGGAATCTTTACGAATCTAGAACCCTTCCGAAACTTGGAATCTTATGAATATGTCTTTCTTGCAA
1 TGGAATCTTTACGAATTTAGAACCTTTGCGAAACTTAGAATCTTATGAATATATCTTTCTTGCAA
*
23537148 ATATGAAAGTCCCTGTGAACC
66 ATATGAAAGTCCCTGCGAACC
* * * * *
23537169 TGAAATTTTTGCGAACTTAGAACTTTTGC
1 TGGAATCTTTACGAATTTAGAACCTTTGC
23537198 AAATCTTGAA
Statistics
Matches: 95, Mismatches: 19, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
86 94 0.99
87 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.36
Consensus pattern (86 bp):
TGGAATCTTTACGAATTTAGAACCTTTGCGAAACTTAGAATCTTATGAATATATCTTTCTTGCAA
ATATGAAAGTCCCTGCGAACC
Found at i:23537602 original size:60 final size:60
Alignment explanation
Indices: 23537526--23537663 Score: 152
Period size: 60 Copynumber: 2.3 Consensus size: 60
23537516 TAGACTAGCA
* * * * *
23537526 ACATCATCCCAATCATTCATTTATGACCTCGACTCGGTCTT-GATCACTTTTAAACTTACG
1 ACATCGTCCCAGTCATTCATTTACGACCTCGACTCGATCTTAG-TCACTTTCAAACTTACG
* ** * * *
23537586 ACATCGTCTCAGTCATTCATTTACGAGTTTGACTCGATCTTAGTCACTTTCAGACTTGCG
1 ACATCGTCCCAGTCATTCATTTACGACCTCGACTCGATCTTAGTCACTTTCAAACTTACG
*
23537646 ACATCGTCCCATTCATTC
1 ACATCGTCCCAGTCATTC
23537664 TATCTTGACT
Statistics
Matches: 64, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
60 63 0.98
61 1 0.02
ACGTcount: A:0.24, C:0.28, G:0.12, T:0.36
Consensus pattern (60 bp):
ACATCGTCCCAGTCATTCATTTACGACCTCGACTCGATCTTAGTCACTTTCAAACTTACG
Found at i:23538180 original size:3 final size:3
Alignment explanation
Indices: 23538172--23538288 Score: 133
Period size: 3 Copynumber: 41.0 Consensus size: 3
23538162 AGTATATCAC
* *
23538172 TAT TAT TA- TAT TAT TAT TAT GGTAC TA- TAT TA- TAC TA- TAT TA-
1 TAT TAT TAT TAT TAT TAT TAT --TAT TAT TAT TAT TAT TAT TAT TAT
*
23538214 TAT TAT TA- TAT TAT TA- TAC TA- TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
23538259 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
23538289 ATCATTATCA
Statistics
Matches: 103, Mismatches: 1, Indels: 20
0.83 0.01 0.16
Matches are distributed among these distances:
2 16 0.16
3 85 0.83
5 2 0.02
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:23538204 original size:13 final size:11
Alignment explanation
Indices: 23538139--23538295 Score: 76
Period size: 12 Copynumber: 13.7 Consensus size: 11
23538129 TTTTTTCTAT
23538139 TATTATTACTA
1 TATTATTACTA
*
23538150 GTATTA-TAGTA
1 -TATTATTACTA
*
23538161 TAGTATATCACTA
1 TA-T-TATTACTA
*
23538174 TTATTA-TATTA
1 -TATTATTACTA
23538185 TTATTATGGTACTA
1 -TATTAT--TACTA
23538199 TATTA-TACTA
1 TATTATTACTA
*
23538209 TATTATATTATTA
1 TA-T-TATTACTA
23538222 TATTATTATACTA
1 TATTA-T-TACTA
23538235 TATTATTA-T-
1 TATTATTACTA
23538244 TATTATTA-T-
1 TATTATTACTA
*
23538253 TATTATTATTA
1 TATTATTACTA
*
23538264 TTATTATTATTA
1 -TATTATTACTA
*
23538276 TTATTATTATTA
1 -TATTATTACTA
*
23538288 TATCATTA
1 TATTATTA
23538296 TCATTTTTTT
Statistics
Matches: 121, Mismatches: 9, Indels: 31
0.75 0.06 0.19
Matches are distributed among these distances:
9 17 0.14
10 11 0.09
11 26 0.21
12 37 0.31
13 24 0.20
14 6 0.05
ACGTcount: A:0.36, C:0.04, G:0.03, T:0.57
Consensus pattern (11 bp):
TATTATTACTA
Found at i:23538236 original size:21 final size:20
Alignment explanation
Indices: 23538136--23538296 Score: 112
Period size: 21 Copynumber: 7.5 Consensus size: 20
23538126 TTATTTTTTC
*
23538136 TATTATTAT-TACTAGTATTA
1 TATTATTATATA-TATTATTA
*
23538156 TAGTATAGTATATCACTATTATTA
1 TA-T-TATTATAT-A-TATTATTA
** *
23538180 TATTATTAT-TATGGTACTA
1 TATTATTATATATATTATTA
23538199 TATTATACTATATTATATTATTA
1 TATTAT--TATA-TATATTATTA
23538222 TATTATTATACTATATTATTA
1 TATTATTATA-TATATTATTA
23538243 TTATTATTAT-TATTATTATTA
1 -TATTATTATATA-TATTATTA
23538264 TTATTATTATTATTATTATTATTA
1 -TATTATTA-TA-TA-TATTATTA
*
23538288 TATCATTAT
1 TATTATTAT
23538297 CATTTTTTTC
Statistics
Matches: 117, Mismatches: 11, Indels: 24
0.77 0.07 0.16
Matches are distributed among these distances:
19 11 0.09
20 5 0.04
21 36 0.31
22 21 0.18
23 22 0.19
24 22 0.19
ACGTcount: A:0.35, C:0.04, G:0.03, T:0.57
Consensus pattern (20 bp):
TATTATTATATATATTATTA
Found at i:23539174 original size:7 final size:7
Alignment explanation
Indices: 23539164--23539242 Score: 52
Period size: 7 Copynumber: 10.4 Consensus size: 7
23539154 TTTTTTTTCA
23539164 TTTTATT
1 TTTTATT
23539171 TTTTATTT
1 TTTTA-TT
23539179 TTTTGATT
1 TTTT-ATT
*
23539187 TTATATT
1 TTTTATT
23539194 TTTTAGCTT
1 TTTTA--TT
*
23539203 ATTTA-T
1 TTTTATT
*
23539209 TTTTAGT
1 TTTTATT
23539216 TTTTATT
1 TTTTATT
*
23539223 ATTTTTTT
1 -TTTTATT
23539231 GGTTTTATT
1 --TTTTATT
23539240 TTT
1 TTT
23539243 GAGAAATTTC
Statistics
Matches: 57, Mismatches: 8, Indels: 14
0.72 0.10 0.18
Matches are distributed among these distances:
6 5 0.09
7 22 0.39
8 17 0.30
9 13 0.23
ACGTcount: A:0.15, C:0.01, G:0.06, T:0.77
Consensus pattern (7 bp):
TTTTATT
Found at i:23539181 original size:21 final size:22
Alignment explanation
Indices: 23539155--23539196 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
23539145 CGTAAGGTTT
23539155 TTTTTTTCATTTTAT-TTTTTA
1 TTTTTTTCATTTTATATTTTTA
*
23539176 TTTTTTTGATTTTATATTTTT
1 TTTTTTTCATTTTATATTTTT
23539197 TAGCTTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.14, C:0.02, G:0.02, T:0.81
Consensus pattern (22 bp):
TTTTTTTCATTTTATATTTTTA
Found at i:23539187 original size:16 final size:16
Alignment explanation
Indices: 23539164--23539236 Score: 60
Period size: 16 Copynumber: 4.6 Consensus size: 16
23539154 TTTTTTTTCA
23539164 TTTT-ATTTTTTATTT
1 TTTTGATTTTTTATTT
*
23539179 TTTTGATTTTATATTT
1 TTTTGATTTTTTATTT
* * *
23539195 TTTAGCTTATTTA-TT
1 TTTTGATTTTTTATTT
* *
23539210 TTTAGTTTTTATTATTT
1 TTTTGATTTT-TTATTT
*
23539227 TTTTGGTTTT
1 TTTTGATTTT
23539237 ATTTTTGAGA
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
15 14 0.30
16 22 0.48
17 10 0.22
ACGTcount: A:0.15, C:0.01, G:0.07, T:0.77
Consensus pattern (16 bp):
TTTTGATTTTTTATTT
Found at i:23539193 original size:23 final size:22
Alignment explanation
Indices: 23539155--23539242 Score: 74
Period size: 24 Copynumber: 3.9 Consensus size: 22
23539145 CGTAAGGTTT
*
23539155 TTTTTTTCA-TTTTATTTTTTA
1 TTTTTTTGATTTTTATTTTTTA
23539176 TTTTTTTGATTTTATATTTTTTA
1 TTTTTTTGATTTT-TATTTTTTA
* *
23539199 GCTTATTT-ATTTTTAGTTTTTATTA
1 -TTTTTTTGATTTTTA--TTTT-TTA
*
23539224 TTTTTTTG-GTTTTATTTTT
1 TTTTTTTGATTTTTATTTTT
23539243 GAGAAATTTC
Statistics
Matches: 54, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
21 9 0.17
22 9 0.17
23 14 0.26
24 19 0.35
25 3 0.06
ACGTcount: A:0.15, C:0.02, G:0.06, T:0.77
Consensus pattern (22 bp):
TTTTTTTGATTTTTATTTTTTA
Found at i:23547404 original size:27 final size:26
Alignment explanation
Indices: 23547360--23547413 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
23547350 TAACGCTTGA
23547360 TTTTAATACACTGCTAAGTTTTATTTT
1 TTTTAATACACTGCTAAGTTTT-TTTT
* * *
23547387 TTTTAATGCAGTGGTAAGTTTTTTTT
1 TTTTAATACACTGCTAAGTTTTTTTT
23547413 T
1 T
23547414 ATAAAATCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 5 0.21
27 19 0.79
ACGTcount: A:0.22, C:0.07, G:0.13, T:0.57
Consensus pattern (26 bp):
TTTTAATACACTGCTAAGTTTTTTTT
Found at i:23549667 original size:28 final size:26
Alignment explanation
Indices: 23549634--23549692 Score: 68
Period size: 26 Copynumber: 2.2 Consensus size: 26
23549624 AGGATATTAT
*
23549634 AGTATTTTTGATAAATTATAA-AGTAAG
1 AGTATTTTTCAT-AATTATAATAG-AAG
23549661 AGGTA-TTTTCATAATTATAATAGAAG
1 A-GTATTTTTCATAATTATAATAGAAG
23549687 AGTATT
1 AGTATT
23549693 ATAGTAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
25 3 0.11
26 13 0.46
27 9 0.32
28 3 0.11
ACGTcount: A:0.42, C:0.02, G:0.15, T:0.41
Consensus pattern (26 bp):
AGTATTTTTCATAATTATAATAGAAG
Found at i:23550778 original size:34 final size:34
Alignment explanation
Indices: 23550740--23550860 Score: 138
Period size: 34 Copynumber: 3.6 Consensus size: 34
23550730 TCATTTTCAA
*
23550740 AAATGAATTTTCGAGAAAACAATGTAATTCTCAT
1 AAATGAATTTTCGAGAATACAATGTAATTCTCAT
*
23550774 AAATGAATTTTTGAGAATACAATGTAATTCTCGA-
1 AAATGAATTTTCGAGAATACAATGTAATTCTC-AT
* * * *
23550808 AAAT-ATGTTTTCAAGAATATAATATAATTCTCAT
1 AAATGA-ATTTTCGAGAATACAATGTAATTCTCAT
* *
23550842 AAACGAATTATCGAGAATA
1 AAATGAATTTTCGAGAATA
23550861 TAACGTTGCT
Statistics
Matches: 72, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
33 2 0.03
34 68 0.94
35 2 0.03
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.34
Consensus pattern (34 bp):
AAATGAATTTTCGAGAATACAATGTAATTCTCAT
Found at i:23553082 original size:3 final size:3
Alignment explanation
Indices: 23553074--23553107 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
23553064 ACACTAACAA
23553074 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
23553108 CAACATCCCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:23553667 original size:34 final size:33
Alignment explanation
Indices: 23553629--23553741 Score: 100
Period size: 34 Copynumber: 3.4 Consensus size: 33
23553619 TCGAAAATTA
* * *
23553629 GTTTTTGAGATGCTTTAAGTTTTCTCAAAAATAG
1 GTTTTTGAGAAGCTTTAAGTCTTCT-AAAAATGG
** * * *
23553663 GTTTTCAAGAGGCATTAAGTCTTCTTGAAAATGG
1 GTTTTTGAGAAGCTTTAAGTCTTC-TAAAAATGG
* * *
23553697 GTTTTTGATAAGCTTGAAGTCTTATAAAAATGG
1 GTTTTTGAGAAGCTTTAAGTCTTCTAAAAATGG
*
23553730 GTTTCTGAGAAG
1 GTTTTTGAGAAG
23553742 AATGTTGCTT
Statistics
Matches: 61, Mismatches: 17, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
33 18 0.30
34 42 0.69
35 1 0.02
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (33 bp):
GTTTTTGAGAAGCTTTAAGTCTTCTAAAAATGG
Found at i:23553896 original size:33 final size:33
Alignment explanation
Indices: 23553854--23553928 Score: 89
Period size: 33 Copynumber: 2.3 Consensus size: 33
23553844 CGATAATTAT
*
23553854 TTTTTGAGAGCCCTAAAGTT-TTCTCAAAATGGA
1 TTTTTGAGAGCCCTAAA-TTCTTCTCAAAATGCA
* **
23553887 TTTTTGAGAGGCCTTTATTCTTCTCAAAATGCA
1 TTTTTGAGAGCCCTAAATTCTTCTCAAAATGCA
*
23553920 ATTTTGAGA
1 TTTTTGAGA
23553929 AACTCAAATT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
32 2 0.06
33 34 0.94
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (33 bp):
TTTTTGAGAGCCCTAAATTCTTCTCAAAATGCA
Found at i:23555227 original size:61 final size:61
Alignment explanation
Indices: 23555121--23555275 Score: 161
Period size: 61 Copynumber: 2.5 Consensus size: 61
23555111 AGATATCTTC
* * * * * *
23555121 ATAATTATGGTAGGAAGGCATTATAGTAATTATGACAAATGATGGTATGAG-GGTATTTTT
1 ATAATTATGGTTGAAAGGCATTATAGTAATTTTGACAAATGATGGTAAGAGAAGTATTTTA
* * * * *
23555181 GTAATTATGGTTGTAAGAGCATTATAGTAATTTTGGCCAATTATGGTAAGAGAAGTATTTTA
1 ATAATTATGGTTGAAAG-GCATTATAGTAATTTTGACAAATGATGGTAAGAGAAGTATTTTA
*
23555243 ATAATTAT-GTTAAAAGGGGCATTATAGTAATTT
1 ATAATTATGGTTGAAA--GGCATTATAGTAATTT
23555276 GAGTTAATCA
Statistics
Matches: 78, Mismatches: 13, Indels: 6
0.80 0.13 0.06
Matches are distributed among these distances:
60 14 0.18
61 34 0.44
62 29 0.37
63 1 0.01
ACGTcount: A:0.35, C:0.04, G:0.23, T:0.38
Consensus pattern (61 bp):
ATAATTATGGTTGAAAGGCATTATAGTAATTTTGACAAATGATGGTAAGAGAAGTATTTTA
Found at i:23556658 original size:18 final size:18
Alignment explanation
Indices: 23556637--23556673 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
23556627 GGGGCATTTT
23556637 GAATCATCATGAAAGATA
1 GAATCATCATGAAAGATA
23556655 GAATCATCATGAAAGATA
1 GAATCATCATGAAAGATA
23556673 G
1 G
23556674 TGAACACATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.49, C:0.11, G:0.19, T:0.22
Consensus pattern (18 bp):
GAATCATCATGAAAGATA
Found at i:23558091 original size:17 final size:18
Alignment explanation
Indices: 23558059--23558107 Score: 66
Period size: 17 Copynumber: 2.7 Consensus size: 18
23558049 TCCTAAACAT
23558059 TTTATATTAATGTTTATTG-
1 TTTATATT-ATGTTTA-TGC
23558078 TTTATATT-TGTTTATGC
1 TTTATATTATGTTTATGC
23558095 TTTATATTATGTT
1 TTTATATTATGTT
23558108 ATGAACATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
16 2 0.07
17 14 0.50
18 4 0.14
19 8 0.29
ACGTcount: A:0.22, C:0.02, G:0.10, T:0.65
Consensus pattern (18 bp):
TTTATATTATGTTTATGC
Found at i:23558162 original size:49 final size:49
Alignment explanation
Indices: 23558109--23558223 Score: 124
Period size: 49 Copynumber: 2.3 Consensus size: 49
23558099 TATTATGTTA
* ** **
23558109 TGAACATGTTATCCAATGGACAATTGTTAAATTTAGGGGTTTA-AGGTTT
1 TGAACATGTTATCCAATGGACAATTATTAAATTTACAGGTTTAGA-ACTT
* * **
23558158 TGAACATGTTATCTAATTGACGGTTATTAAATTTACAGGTTTAGAACTT
1 TGAACATGTTATCCAATGGACAATTATTAAATTTACAGGTTTAGAACTT
*
23558207 TGAACATGCTATCCAAT
1 TGAACATGTTATCCAAT
23558224 TGCCATTGAA
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
49 53 0.98
50 1 0.02
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.38
Consensus pattern (49 bp):
TGAACATGTTATCCAATGGACAATTATTAAATTTACAGGTTTAGAACTT
Found at i:23558275 original size:6 final size:6
Alignment explanation
Indices: 23558266--23558291 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
23558256 AAATATAAAG
23558266 TAAACA TAAACA TAAACA TAAACA TA
1 TAAACA TAAACA TAAACA TAAACA TA
23558292 TAAAATTAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.65, C:0.15, G:0.00, T:0.19
Consensus pattern (6 bp):
TAAACA
Found at i:23558354 original size:16 final size:17
Alignment explanation
Indices: 23558313--23558354 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
23558303 TGTCAAAATA
*
23558313 AAATCAGTATCGGCATC
1 AAATCAGTATCAGCATC
* *
23558330 AAATTAGTATCATCAT-
1 AAATCAGTATCAGCATC
23558346 AAATCAGTA
1 AAATCAGTA
23558355 GTTAGAATCT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 8 0.38
17 13 0.62
ACGTcount: A:0.43, C:0.17, G:0.12, T:0.29
Consensus pattern (17 bp):
AAATCAGTATCAGCATC
Found at i:23560255 original size:36 final size:36
Alignment explanation
Indices: 23560213--23560281 Score: 97
Period size: 36 Copynumber: 1.9 Consensus size: 36
23560203 AATAAAAAAT
*
23560213 GTAATTTTT-TTGTAATTATAGT-TAAAAGGTATTAGA
1 GTAATTTTTGTTG-AA-TATAATATAAAAGGTATTAGA
23560249 GTAATTTTTGTTGAATATAATATAAAAGGTATT
1 GTAATTTTTGTTGAATATAATATAAAAGGTATT
23560282 TTCATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
35 5 0.17
36 22 0.73
37 3 0.10
ACGTcount: A:0.38, C:0.00, G:0.16, T:0.46
Consensus pattern (36 bp):
GTAATTTTTGTTGAATATAATATAAAAGGTATTAGA
Found at i:23560767 original size:1 final size:1
Alignment explanation
Indices: 23560763--23560805 Score: 50
Period size: 1 Copynumber: 43.0 Consensus size: 1
23560753 TTAAAAACGT
** **
23560763 AAAAAAAAAAAAAAAAACTAAAAAGCAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
23560806 GAAGGAACCA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
1 36 1.00
ACGTcount: A:0.91, C:0.05, G:0.02, T:0.02
Consensus pattern (1 bp):
A
Found at i:23560777 original size:19 final size:20
Alignment explanation
Indices: 23560755--23560799 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
23560745 AAAAAAATTT
23560755 AAAAACGTAAAAAA-AAAAAA
1 AAAAAC-TAAAAAACAAAAAA
*
23560775 AAAAACTAAAAAGCAAAAAA
1 AAAAACTAAAAAACAAAAAA
23560795 AAAAA
1 AAAAA
23560800 AAAAAAGAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.84, C:0.07, G:0.04, T:0.04
Consensus pattern (20 bp):
AAAAACTAAAAAACAAAAAA
Found at i:23560778 original size:20 final size:20
Alignment explanation
Indices: 23560755--23560800 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 20
23560745 AAAAAAATTT
23560755 AAAAACGTAAAAA-AAAAAAA
1 AAAAAC-TAAAAACAAAAAAA
23560775 AAAAACTAAAAAGCAAAAAAA
1 AAAAACTAAAAA-CAAAAAAA
23560796 AAAAA
1 AAAAA
23560801 AAAAAGAAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.25
20 6 0.25
21 12 0.50
ACGTcount: A:0.85, C:0.07, G:0.04, T:0.04
Consensus pattern (20 bp):
AAAAACTAAAAACAAAAAAA
Found at i:23560784 original size:27 final size:26
Alignment explanation
Indices: 23560728--23560805 Score: 93
Period size: 26 Copynumber: 2.8 Consensus size: 26
23560718 TGTGTTGTTG
**
23560728 AAAGCAAAAAAGCCAAAAAAAAAATTTAA
1 AAAGCAAAAAA---AAAAAAAAAAACTAA
*
23560757 AAACGTAAAAAAAAAAAAAAAAACTAA
1 AAA-GCAAAAAAAAAAAAAAAAACTAA
23560784 AAAGCAAAAAAAAAAAAAAAAA
1 AAAGCAAAAAAAAAAAAAAAAA
23560806 GAAGGAACCA
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
26 18 0.41
27 16 0.36
29 3 0.07
30 7 0.16
ACGTcount: A:0.81, C:0.08, G:0.05, T:0.06
Consensus pattern (26 bp):
AAAGCAAAAAAAAAAAAAAAAACTAA
Found at i:23561033 original size:26 final size:26
Alignment explanation
Indices: 23560977--23561036 Score: 88
Period size: 26 Copynumber: 2.3 Consensus size: 26
23560967 TGTTAGTCAC
23560977 AAAAAGTATCCCTTGAAAAAAAAAAGT
1 AAAAAGTATCCCTT-AAAAAAAAAAGT
23561004 -AAAAGTATCCCTT-AAAAAAAAAGT
1 AAAAAGTATCCCTTAAAAAAAAAAGT
23561028 GAAAAAGTA
1 -AAAAAGTA
23561037 GGTATCTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
24 11 0.35
26 20 0.65
ACGTcount: A:0.60, C:0.10, G:0.12, T:0.18
Consensus pattern (26 bp):
AAAAAGTATCCCTTAAAAAAAAAAGT
Found at i:23565285 original size:17 final size:18
Alignment explanation
Indices: 23565253--23565286 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
23565243 TTTAATATTT
23565253 AAAAATATTGATAAATTC
1 AAAAATATTGATAAATTC
*
23565271 AAAAATTTTGA-AAATT
1 AAAAATATTGATAAATT
23565287 ATTTTTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.35
Consensus pattern (18 bp):
AAAAATATTGATAAATTC
Found at i:23565551 original size:477 final size:480
Alignment explanation
Indices: 23565012--23565995 Score: 1642
Period size: 477 Copynumber: 2.0 Consensus size: 480
23565002 TCTTTTTCAA
* *
23565012 TATTTTGATTTTTTTAAAAATAATATTTCTTCAATTTAATGAAAAATCATATTTCATTTTCTAAA
1 TATTTTAATGTTTTTAAAAATAATATTTCTTCAATTTAATGAAAAATCATATTTCATTTTCTAAA
* * *
23565077 CATATAATTTTCAAATTTTAGAATTTTTTAAATATTTAACAATATGTTATTTTT-TAAAAATAAT
66 AATATAAGTTTCAAATTTTAGAATTTTTTAAATATTTAACAATATGTTATTTTTAAAAAAAT-AT
* *
23565141 ATTTTTTAATCTTTTAAATAAAATTTAAACTTTTTATTAAATTTTTAGATTTTTAAAATATTAAA
130 ATTTTTTAAGCTTTTAAATAAAATTTAAACTTTTTATTAAATTTTTACATTTTTAAAATATTAAA
* *
23565206 TTTAACATTTTAAAATTAAAATATTGGAAATTTTAAATTTAATATTTAAAAATATTGATAAATTC
195 ATTAACATTTTAAAATTAAAATATTGGAAA-ATTAAATTTAATATTTAAAAATATTGATAAATTC
* *
23565271 AAAA-ATTTTGAAAATTATTTTTTAAAAAGCTGAAATATAAATTTTTTAAAATAAAAGTAATAAT
259 AAAATA-TTTGAAAATTATTTTTAAAAAAACTGAAATATAAATTTTTTAAAATAAAAGTAATAAT
23565335 A-TTTTTTTG-AAAAAATAAAATATTGGAAAACAAAAAATTTTTAAAA-TTTTTTAAATGAAGAT
323 ATTTTTTTTGAAAAAAATAAAATATTGGAAAACAAAAAA-TTTTAAAATTTTTTTAAATGAAGAT
23565397 AACTCTAAATAATTCATAAATTTGAAGTTTATTT-AAAT-TTTTTTT-AATTCAAGAAATATTAT
387 AACTCTAAATAATTCATAAATTTGAAGTTTATTTAAAATATTTTTTTAAATTCAAGAAATATTAT
23565459 TTTTAAAAAATTAAAATATTGGAAAAAAT
452 TTTTAAAAAATTAAAATATTGGAAAAAAT
* *
23565488 TATTTTAATGTTTTAAAAAATATTTATTTCTTCAATTTAATGAAAAATCATATTTCATTTTCTAA
1 TATTTTAATGTTTTTAAAAATA-ATATTTCTTCAATTTAATGAAAAATCATATTTCATTTTCTAA
23565553 AAATATAAGTTTCAAATTTTAGAATTTTTTAAATATTTAACAATATGTTATTTTTAAAAAAATAT
65 AAATATAAGTTTCAAATTTTAGAATTTTTTAAATATTTAACAATATGTTATTTTTAAAAAAATAT
* *
23565618 ATTTTTTAAGCTTTTTAATAAAATTTAAACTTTTTATTAAATTTTTACATTTTTAAAATGTTAAA
130 ATTTTTTAAGCTTTTAAATAAAATTTAAACTTTTTATTAAATTTTTACATTTTTAAAATATTAAA
* *
23565683 ATTAACGTTTTAAAATTAAAATATTGGAAAATTAAATTTATTATTTAAAAATATTGATAAATTCA
195 ATTAACATTTTAAAATTAAAATATTGGAAAATTAAATTTAATATTTAAAAATATTGATAAATTCA
*
23565748 AAATATTTGAAAGTTATTTTTAAAAAAACTGAAATATAAATTTTTTAAAATAAAAGTAATAATAT
260 AAATATTTGAAAATTATTTTTAAAAAAACTGAAATATAAATTTTTTAAAATAAAAGTAATAATAT
*
23565813 TTTTTTTGAAAAAAATAAAATATTGGAAAACAAAAAATTTTAAAATTTTTTTAAATGAAGATAAT
325 TTTTTTTGAAAAAAATAAAATATTGGAAAACAAAAAATTTTAAAATTTTTTTAAATGAAGATAAC
23565878 TCTAAATAATTCATAAATTTGAAGTTTATTTAAAATAAAAACTTTTTTTAAAATTCAAGAAATAT
390 TCTAAATAATTCATAAATTTGAAGTTTATTTAAAAT----A-TTTTTTT-AAATTCAAGAAATAT
23565943 TATTTTTAAAAAATTAAAATATTGGAAAAAAT
449 TATTTTTAAAAAATTAAAATATTGGAAAAAAT
23565975 TATTTTAATGTTTTTAAAAAT
1 TATTTTAATGTTTTTAAAAAT
23565996 CTGAAAAAAA
Statistics
Matches: 473, Mismatches: 20, Indels: 19
0.92 0.04 0.04
Matches are distributed among these distances:
476 111 0.23
477 202 0.43
478 83 0.18
479 4 0.01
485 7 0.01
487 66 0.14
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.45
Consensus pattern (480 bp):
TATTTTAATGTTTTTAAAAATAATATTTCTTCAATTTAATGAAAAATCATATTTCATTTTCTAAA
AATATAAGTTTCAAATTTTAGAATTTTTTAAATATTTAACAATATGTTATTTTTAAAAAAATATA
TTTTTTAAGCTTTTAAATAAAATTTAAACTTTTTATTAAATTTTTACATTTTTAAAATATTAAAA
TTAACATTTTAAAATTAAAATATTGGAAAATTAAATTTAATATTTAAAAATATTGATAAATTCAA
AATATTTGAAAATTATTTTTAAAAAAACTGAAATATAAATTTTTTAAAATAAAAGTAATAATATT
TTTTTTGAAAAAAATAAAATATTGGAAAACAAAAAATTTTAAAATTTTTTTAAATGAAGATAACT
CTAAATAATTCATAAATTTGAAGTTTATTTAAAATATTTTTTTAAATTCAAGAAATATTATTTTT
AAAAAATTAAAATATTGGAAAAAAT
Found at i:23565661 original size:18 final size:19
Alignment explanation
Indices: 23565622--23565658 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
23565612 AAATATATTT
*
23565622 TTTAAGCTTTTTAATAAAA
1 TTTAAACTTTTTAATAAAA
*
23565641 TTTAAACTTTTTATTAAA
1 TTTAAACTTTTTAATAAA
23565659 TTTTTACATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (19 bp):
TTTAAACTTTTTAATAAAA
Found at i:23565817 original size:26 final size:23
Alignment explanation
Indices: 23565764--23565836 Score: 65
Period size: 26 Copynumber: 3.0 Consensus size: 23
23565754 TTGAAAGTTA
* **
23565764 TTTTTAAAAAAACTGAAATATAAAT
1 TTTTTAAAAAAAAT-AAA-ATATTT
23565789 TTTTTAAAATAAAAGTAATAATATTT
1 TTTTTAAAA-AAAA-TAA-AATATTT
*
23565815 TTTTTGAAAAAAATAAAATATT
1 TTTTTAAAAAAAATAAAATATT
23565837 GGAAAACAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
23 6 0.15
24 3 0.07
25 13 0.32
26 17 0.41
27 2 0.05
ACGTcount: A:0.53, C:0.01, G:0.04, T:0.41
Consensus pattern (23 bp):
TTTTTAAAAAAAATAAAATATTT
Found at i:23566057 original size:17 final size:18
Alignment explanation
Indices: 23566025--23566068 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
23566015 TAAATTTTAA
23566025 AATTTTTTATCATTTTT-
1 AATTTTTTATCATTTTTG
*
23566042 AGTTTTTTATTC-TTTTTG
1 AATTTTTTA-TCATTTTTG
23566060 AATTTTTTA
1 AATTTTTTA
23566069 ATATTTCTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 13 0.57
18 10 0.43
ACGTcount: A:0.20, C:0.05, G:0.05, T:0.70
Consensus pattern (18 bp):
AATTTTTTATCATTTTTG
Found at i:23566081 original size:18 final size:17
Alignment explanation
Indices: 23566025--23566094 Score: 61
Period size: 18 Copynumber: 4.0 Consensus size: 17
23566015 TAAATTTTAA
23566025 AATTTTTT-ATCATTTTT
1 AATTTTTTAAT-ATTTTT
* * *
23566042 AGTTTTTTATTCTTTTT
1 AATTTTTTAATATTTTT
23566059 GAATTTTTTAATATTTCTT
1 -AATTTTTTAATATTT-TT
* *
23566078 AATTTTTAAATGTTTTT
1 AATTTTTTAATATTTTT
23566095 CTAAAGAGAC
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
17 14 0.33
18 26 0.62
19 2 0.05
ACGTcount: A:0.23, C:0.04, G:0.04, T:0.69
Consensus pattern (17 bp):
AATTTTTTAATATTTTT
Found at i:23567033 original size:31 final size:30
Alignment explanation
Indices: 23566967--23567034 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 30
23566957 GATAAAAACA
*
23566967 AAATAGATCTTAAAATAAAGAAATCCAAAT
1 AAATAAATCTTAAAATAAAGAAATCCAAAT
* *
23566997 TAATAAATCTTAAAATAATAGAAAAT-CAACT
1 AAATAAATCTTAAAATAA-AG-AAATCCAAAT
23567028 AAATAAA
1 AAATAAA
23567035 ATTTAAGATC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
30 16 0.50
31 12 0.38
32 4 0.12
ACGTcount: A:0.62, C:0.09, G:0.04, T:0.25
Consensus pattern (30 bp):
AAATAAATCTTAAAATAAAGAAATCCAAAT
Found at i:23569333 original size:6 final size:6
Alignment explanation
Indices: 23569318--23569368 Score: 57
Period size: 6 Copynumber: 8.5 Consensus size: 6
23569308 CGCGCGTGTG
* * * * *
23569318 TATACA TATATG TATATA GATATG TACATA TATATA TATATA TATATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
23569366 TAT
1 TAT
23569369 GAGTCATAAT
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (6 bp):
TATATA
Found at i:23569354 original size:4 final size:4
Alignment explanation
Indices: 23569318--23569368 Score: 57
Period size: 4 Copynumber: 12.8 Consensus size: 4
23569308 CGCGCGTGTG
* * * * *
23569318 TATA CATA TATG TATA TAGA TATG TACA TATA TATA TATA TATA TATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
23569366 TAT
1 TAT
23569369 GAGTCATAAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (4 bp):
TATA
Found at i:23571997 original size:2 final size:2
Alignment explanation
Indices: 23571986--23572024 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
23571976 GTTATCTGCT
*
23571986 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23572025 GACAAATTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:23577014 original size:15 final size:15
Alignment explanation
Indices: 23576996--23577034 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
23576986 TATATTTGTG
23576996 TTATTAATA-TATTA
1 TTATTAATATTATTA
*
23577010 TTTATTATTATTATTA
1 -TTATTAATATTATTA
23577026 TTATTAATA
1 TTATTAATA
23577035 AAATATAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 16 0.76
16 5 0.24
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TTATTAATATTATTA
Found at i:23577030 original size:30 final size:29
Alignment explanation
Indices: 23576972--23577034 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 29
23576962 GCCTCACGTA
*
23576972 AATATATATTTACTTATATTTGTGTTATT
1 AATATATATTTACTTATATTTGTATTATT
23577001 AATATATTATTTA-TTATTATTAT-TATTATT
1 AATATA-TATTTACTTA-TATT-TGTATTATT
23577031 AATA
1 AATA
23577035 AAATATAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
29 9 0.30
30 20 0.67
31 1 0.03
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.59
Consensus pattern (29 bp):
AATATATATTTACTTATATTTGTATTATT
Found at i:23584221 original size:8 final size:8
Alignment explanation
Indices: 23584208--23584299 Score: 51
Period size: 8 Copynumber: 10.8 Consensus size: 8
23584198 AAATTTATCT
23584208 AATAAAAA
1 AATAAAAA
23584216 AAT-AAAA
1 AATAAAAA
*
23584223 ATTAAAAGCA
1 AATAAAA--A
23584233 AATAAAAA
1 AATAAAAA
**
23584241 GTTAAAAA
1 AATAAAAA
23584249 TAATATAACAA
1 -AATA-AA-AA
*
23584260 TATAATAAA
1 AATAA-AAA
*
23584269 AACAAAAA
1 AATAAAAA
23584277 ATATAAAAA
1 A-ATAAAAA
*
23584286 TATAAAAA
1 AATAAAAA
*
23584294 AGTAAA
1 AATAAA
23584300 GAATGGAGGA
Statistics
Matches: 63, Mismatches: 13, Indels: 16
0.68 0.14 0.17
Matches are distributed among these distances:
7 6 0.10
8 28 0.44
9 14 0.22
10 13 0.21
11 2 0.03
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.20
Consensus pattern (8 bp):
AATAAAAA
Found at i:23584253 original size:17 final size:15
Alignment explanation
Indices: 23584210--23584293 Score: 60
Period size: 17 Copynumber: 4.9 Consensus size: 15
23584200 ATTTATCTAA
23584210 TAAAAAAATAAAAAT
1 TAAAAAAATAAAAAT
23584225 TAAAAGCAAATAAAAAGT
1 TAAAA--AAATAAAAA-T
23584243 TAAAAATAATATAACAAT
1 TAAAAA-AATA-AA-AAT
*
23584261 ATAATAAAAACAAAAAAT
1 -TAA-AAAAA-TAAAAAT
*
23584279 ATAAAAATATAAAAA
1 -TAAAAAAATAAAAA
23584294 AGTAAAGAAT
Statistics
Matches: 57, Mismatches: 3, Indels: 17
0.74 0.04 0.22
Matches are distributed among these distances:
15 5 0.09
16 6 0.11
17 17 0.30
18 16 0.28
19 9 0.16
20 4 0.07
ACGTcount: A:0.74, C:0.04, G:0.02, T:0.20
Consensus pattern (15 bp):
TAAAAAAATAAAAAT
Found at i:23584287 original size:26 final size:26
Alignment explanation
Indices: 23584245--23584294 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
23584235 TAAAAAGTTA
*
23584245 AAAATAATATAACAATATAATAAAAAC
1 AAAATAATATAAAAATATAA-AAAAAC
23584272 AAAA-AATATAAAAATATAAAAAA
1 AAAATAATATAAAAATATAAAAAA
23584295 GTAAAGAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 4 0.18
26 14 0.64
27 4 0.18
ACGTcount: A:0.76, C:0.04, G:0.00, T:0.20
Consensus pattern (26 bp):
AAAATAATATAAAAATATAAAAAAAC
Found at i:23587915 original size:104 final size:105
Alignment explanation
Indices: 23587735--23587942 Score: 373
Period size: 104 Copynumber: 2.0 Consensus size: 105
23587725 AGAGAGACAT
23587735 TTTCACCAACAAAGGGAAATCTAAAAATAAAGGACAACAGAGCTCCATCATATGCAAAATGTTAT
1 TTTCACCAACAAAGGGAAATCTAAAAATAAAGGACAACAGAGCTCCATCATATGCAAAATGTTAT
*
23587800 ATGTCAAT-AAAAAATACTGCACAGTATATATATCATGTG
66 ATGTCAATAAAAAAAAACTGCACAGTATATATATCATGTG
* * *
23587839 TTTCACCAACAAAGGGCAATCTCAAAATAAAGGACAACAGAGTTCCATCATATGCAAAATGTTAT
1 TTTCACCAACAAAGGGAAATCTAAAAATAAAGGACAACAGAGCTCCATCATATGCAAAATGTTAT
23587904 ATGTCAATAAAAAAAAACTGCACAGTATATATATCATGT
66 ATGTCAATAAAAAAAAACTGCACAGTATATATATCATGT
23587943 ATATATTGTA
Statistics
Matches: 99, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
104 70 0.71
105 29 0.29
ACGTcount: A:0.45, C:0.17, G:0.13, T:0.25
Consensus pattern (105 bp):
TTTCACCAACAAAGGGAAATCTAAAAATAAAGGACAACAGAGCTCCATCATATGCAAAATGTTAT
ATGTCAATAAAAAAAAACTGCACAGTATATATATCATGTG
Found at i:23597546 original size:2 final size:2
Alignment explanation
Indices: 23597539--23597567 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
23597529 GAATTCATCC
23597539 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
23597568 TTCACTTCAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23604317 original size:24 final size:22
Alignment explanation
Indices: 23604252--23604311 Score: 61
Period size: 24 Copynumber: 2.6 Consensus size: 22
23604242 AAAATGTGAT
23604252 TTTTTTATAAATTT--ATAAATTTA
1 TTTTTTA-AAATTTACATAAA--TA
23604275 TTTTTTAAAATTTACATAAATA
1 TTTTTTAAAATTTACATAAATA
23604297 TTTTATATAAAATTT
1 TTTT-T-TAAAATTT
23604312 TAATAATATA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
22 12 0.36
23 8 0.24
24 13 0.39
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
TTTTTTAAAATTTACATAAATA
Found at i:23605388 original size:19 final size:21
Alignment explanation
Indices: 23605357--23605395 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
23605347 TATATAGTTT
23605357 TAATAATTTTTAT-TTAAAAA
1 TAATAATTTTTATATTAAAAA
23605377 TAATAA-TTTTATATTAAAA
1 TAATAATTTTTATATTAAAA
23605396 TTTATTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TAATAATTTTTATATTAAAAA
Found at i:23607846 original size:29 final size:30
Alignment explanation
Indices: 23607807--23607880 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 30
23607797 ACTTTATTAT
* * *
23607807 TTTAC-TT-AAATAAGTTTGTATATTTTTA
1 TTTACATTCAAATAAATTTGTAAATTTTAA
*
23607835 TTT-CATTCAAATAAATTTTTAAATTTTAA
1 TTTACATTCAAATAAATTTGTAAATTTTAA
23607864 TTTACATTCAAATAAAT
1 TTTACATTCAAATAAAT
23607881 CTTAATCTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
27 1 0.03
28 5 0.13
29 20 0.51
30 13 0.33
ACGTcount: A:0.39, C:0.07, G:0.03, T:0.51
Consensus pattern (30 bp):
TTTACATTCAAATAAATTTGTAAATTTTAA
Found at i:23607885 original size:29 final size:28
Alignment explanation
Indices: 23607834--23607925 Score: 87
Period size: 29 Copynumber: 3.1 Consensus size: 28
23607824 GTATATTTTT
*
23607834 ATTTCATTCAAATAAATTTTTAA-ATTTTA
1 ATTTCATTCAAATAAA-TATTAATA-TTTA
* *
23607863 ATTTACATTCAAATAAATCTTAATCTTTA
1 ATTT-CATTCAAATAAATATTAATATTTA
* *
23607892 ATTTGTATCCAAATAAATATTTAATATTTA
1 ATTT-CATTCAAATAAATA-TTAATATTTA
23607922 ATTT
1 ATTT
23607926 GTATTTAAAT
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
29 28 0.53
30 25 0.47
ACGTcount: A:0.41, C:0.09, G:0.01, T:0.49
Consensus pattern (28 bp):
ATTTCATTCAAATAAATATTAATATTTA
Found at i:23607946 original size:30 final size:30
Alignment explanation
Indices: 23607834--23607948 Score: 119
Period size: 30 Copynumber: 3.9 Consensus size: 30
23607824 GTATATTTTT
23607834 ATTT-CATTCAAATAAATTTTTAA-ATTTTA
1 ATTTGCATTCAAATAAATTTTTAATA-TTTA
* * *
23607863 ATTTACATTCAAATAAA-TCTTAATCTTTA
1 ATTTGCATTCAAATAAATTTTTAATATTTA
* * *
23607892 ATTTGTATCCAAATAAATATTTAATATTTA
1 ATTTGCATTCAAATAAATTTTTAATATTTA
* * *
23607922 ATTTGTATTTAAATAAGTTTTTAATAT
1 ATTTGCATTCAAATAAATTTTTAATAT
23607949 CAATTAAATT
Statistics
Matches: 71, Mismatches: 12, Indels: 5
0.81 0.14 0.06
Matches are distributed among these distances:
29 27 0.38
30 44 0.62
ACGTcount: A:0.41, C:0.07, G:0.03, T:0.50
Consensus pattern (30 bp):
ATTTGCATTCAAATAAATTTTTAATATTTA
Found at i:23608043 original size:20 final size:20
Alignment explanation
Indices: 23608020--23608057 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
23608010 TTGAATTCAA
23608020 TAAAAATATAAA-AATTTATT
1 TAAAAATA-AAATAATTTATT
23608040 TAAAAATAAAATAATTTA
1 TAAAAATAAAATAATTTA
23608058 CAAATTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
TAAAAATAAAATAATTTATT
Found at i:23610999 original size:17 final size:17
Alignment explanation
Indices: 23610975--23611009 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 17
23610965 TTATTTATCT
23610975 ATATATAATATAAAAATTA
1 ATATA-AAT-TAAAAATTA
23610994 ATATAAATTAAAAATT
1 ATATAAATTAAAAATT
23611010 TTAATTACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 3 0.19
19 5 0.31
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
ATATAAATTAAAAATTA
Found at i:23616353 original size:37 final size:39
Alignment explanation
Indices: 23616312--23616391 Score: 96
Period size: 38 Copynumber: 2.1 Consensus size: 39
23616302 TACTCTATTA
23616312 AAATTTA-ATC-TAAATATTTTTAGTGAAA-CTTTTAATC
1 AAATTTACATCTTAAATATTTTTAGT-AAAGCTTTTAATC
* **
23616349 AAA-TTACGTCTTCTATATTTTTAGTAAAGCTTTTAATC
1 AAATTTACATCTTAAATATTTTTAGTAAAGCTTTTAATC
23616387 AAATT
1 AAATT
23616392 ACGTCTTCTA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
36 3 0.08
37 8 0.22
38 24 0.67
39 1 0.03
ACGTcount: A:0.38, C:0.10, G:0.06, T:0.46
Consensus pattern (39 bp):
AAATTTACATCTTAAATATTTTTAGTAAAGCTTTTAATC
Found at i:23616367 original size:38 final size:38
Alignment explanation
Indices: 23616325--23616404 Score: 144
Period size: 38 Copynumber: 2.1 Consensus size: 38
23616315 TTTAATCTAA
23616325 ATATTTTTAGTGAAA-CTTTTAATCAAATTACGTCTTCT
1 ATATTTTTAGT-AAAGCTTTTAATCAAATTACGTCTTCT
23616363 ATATTTTTAGTAAAGCTTTTAATCAAATTACGTCTTCT
1 ATATTTTTAGTAAAGCTTTTAATCAAATTACGTCTTCT
23616401 ATAT
1 ATAT
23616405 AAAAACAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
37 3 0.07
38 38 0.93
ACGTcount: A:0.33, C:0.12, G:0.07, T:0.47
Consensus pattern (38 bp):
ATATTTTTAGTAAAGCTTTTAATCAAATTACGTCTTCT
Found at i:23618779 original size:73 final size:73
Alignment explanation
Indices: 23618643--23618828 Score: 191
Period size: 73 Copynumber: 2.5 Consensus size: 73
23618633 ATTTTGCCTA
* * * * * * *
23618643 GACTCGATTGATCTTTTCCATGAGGAGATCGATTGGTTCATGTTTAGGTGCCATTTACGCCTTTG
1 GACTCGATCGATCTCTTCCATAAGG-GATCGATTGGTTCACGTTTAGGAGCCAATTACACCTTTG
23618708 AAAAT-CAT
65 AAAATGCAT
* *
23618716 GACTCGATCGATCTCTTCCATAAGAGGATTGATTGGTTCACGTTTTGGAAG-CAATTACACCTTT
1 GACTCGATCGATCTCTTCCATAAG-GGATCGATTGGTTCACGTTTAGG-AGCCAATTACACCTTT
*
23618780 GAAAATGCCT
64 GAAAATGCAT
* *
23618790 -ACCCGATCGATC-CATTCCTTGAAGGGATCGATTGGTTCA
1 GACTCGATCGATCTC-TTCCAT-AAGGGATCGATTGGTTCA
23618829 AGGGGGTGAT
Statistics
Matches: 95, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
72 1 0.01
73 87 0.92
74 7 0.07
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (73 bp):
GACTCGATCGATCTCTTCCATAAGGGATCGATTGGTTCACGTTTAGGAGCCAATTACACCTTTGA
AAATGCAT
Found at i:23620306 original size:17 final size:19
Alignment explanation
Indices: 23620269--23620306 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
23620259 TGACCAAAGA
*
23620269 ATTCATGCATTGACTAACT
1 ATTCATGCATTGACAAACT
23620288 ATTCATGCATT-A-AAACT
1 ATTCATGCATTGACAAACT
23620305 AT
1 AT
23620307 CAATCTCATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 1 0.06
19 11 0.61
ACGTcount: A:0.37, C:0.18, G:0.08, T:0.37
Consensus pattern (19 bp):
ATTCATGCATTGACAAACT
Found at i:23621882 original size:15 final size:15
Alignment explanation
Indices: 23621862--23621891 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
23621852 CAAAGCTTAA
23621862 TATTTTCAATATTTT
1 TATTTTCAATATTTT
*
23621877 TATTTTTAATATTTT
1 TATTTTCAATATTTT
23621892 GAAGCTCATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (15 bp):
TATTTTCAATATTTT
Found at i:23624599 original size:12 final size:12
Alignment explanation
Indices: 23624582--23624608 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
23624572 TTATGAGTAA
23624582 AATAATATTTTT
1 AATAATATTTTT
23624594 AATAATATTTTT
1 AATAATATTTTT
23624606 AAT
1 AAT
23624609 TTTTAAAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
AATAATATTTTT
Found at i:23625247 original size:80 final size:80
Alignment explanation
Indices: 23625073--23625247 Score: 174
Period size: 80 Copynumber: 2.2 Consensus size: 80
23625063 TCATTTTAGC
* ** *
23625073 TTTCCTTACCTTTTTCGTTTTCTTTGATTTTAAAAATAATATTTATCTATTAACTATGATAATTA
1 TTTCTTTACC-TTTTCAATTTCTTTGATTTTAAAAATAATATTTATCTATTAACTATAATAATTA
* **
23625138 ATTATGTATTTTTTAT
65 ATTATGCATTTTGGAT
** * *
23625154 TTTCTTTGTCTTTTCAATTTCTTT-AGTTTTAAAAATAATATTTATCTATTAATTGTAATCAATT
1 TTTCTTTACCTTTTCAATTTCTTTGA-TTTTAAAAATAATATTTATCTATTAACTATAAT-AATT
* * * *
23625218 GATTGTGCCTTTTGGGT
64 AATTATGCATTTTGGAT
23625235 TTT-TTTACCTTTT
1 TTTCTTTACCTTTT
23625248 TTTTTACAAT
Statistics
Matches: 75, Mismatches: 17, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 1 0.01
80 50 0.67
81 24 0.32
ACGTcount: A:0.25, C:0.10, G:0.07, T:0.57
Consensus pattern (80 bp):
TTTCTTTACCTTTTCAATTTCTTTGATTTTAAAAATAATATTTATCTATTAACTATAATAATTAA
TTATGCATTTTGGAT
Found at i:23625636 original size:16 final size:16
Alignment explanation
Indices: 23625615--23625646 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
23625605 TAACTGATTA
23625615 TGTCTTTGAGTTTTTT
1 TGTCTTTGAGTTTTTT
*
23625631 TGTCTTTTAGTTTTTT
1 TGTCTTTGAGTTTTTT
23625647 CTAATTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.06, G:0.16, T:0.72
Consensus pattern (16 bp):
TGTCTTTGAGTTTTTT
Found at i:23627225 original size:2 final size:2
Alignment explanation
Indices: 23627218--23627266 Score: 57
Period size: 2 Copynumber: 25.0 Consensus size: 2
23627208 CAATTGAGTT
* *
23627218 TA TA TA TA TA TA TA TA TA AA TA TA TA TA -A TA TA -A TA TA AA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23627258 TA CTA TA TA
1 TA -TA TA TA
23627267 AGTACTATCC
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
1 2 0.05
2 36 0.90
3 2 0.05
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (2 bp):
TA
Found at i:23628094 original size:3 final size:3
Alignment explanation
Indices: 23628086--23628139 Score: 99
Period size: 3 Copynumber: 18.0 Consensus size: 3
23628076 AATTGTTGAT
*
23628086 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
23628134 TTA TTA
1 TTA TTA
23628140 AATCATGCAA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:23635444 original size:29 final size:29
Alignment explanation
Indices: 23635401--23635457 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
23635391 TCAATTATAA
*
23635401 TAAAAAATTTAAATATGATATTTAAATTT
1 TAAAAAATTTAAATATGATATCTAAATTT
* *
23635430 TAAAAATTTTTAATATGATATCTAAATT
1 TAAAAAATTTAAATATGATATCTAAATT
23635458 ATGAATATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.46
Consensus pattern (29 bp):
TAAAAAATTTAAATATGATATCTAAATTT
Found at i:23636724 original size:16 final size:16
Alignment explanation
Indices: 23636678--23636726 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
23636668 CATCATTTAA
23636678 AATT-AATATTATATT
1 AATTAAATATTATATT
*
23636693 AATTAACAAATT-TATT
1 AATTAA-ATATTATATT
*
23636709 ATTTAAATATTATATT
1 AATTAAATATTATATT
23636725 AA
1 AA
23636727 AAATTTTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
15 8 0.30
16 15 0.56
17 4 0.15
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (16 bp):
AATTAAATATTATATT
Found at i:23642222 original size:3 final size:3
Alignment explanation
Indices: 23642210--23642270 Score: 115
Period size: 3 Copynumber: 20.7 Consensus size: 3
23642200 TTTTAAGATT
23642210 TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
23642257 TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TA
23642271 GAAGTAAAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.04
3 55 0.96
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:23642813 original size:9 final size:10
Alignment explanation
Indices: 23642786--23642815 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
23642776 ATTGAACTTT
23642786 TATATTTTAA
1 TATATTTTAA
23642796 TATATTTTAA
1 TATATTTTAA
23642806 TA-ATTTTAA
1 TATATTTTAA
23642815 T
1 T
23642816 TAATAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 8 0.40
10 12 0.60
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (10 bp):
TATATTTTAA
Found at i:23649916 original size:6 final size:6
Alignment explanation
Indices: 23649905--23649938 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
23649895 ATAAAATGTA
*
23649905 ATAATT ATAATT ATAATA ATAATT ATAATT ATAA
1 ATAATT ATAATT ATAATT ATAATT ATAATT ATAA
23649939 AAACTCTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (6 bp):
ATAATT
Found at i:23649926 original size:18 final size:18
Alignment explanation
Indices: 23649903--23649938 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
23649893 TTATAAAATG
23649903 TAATAATTATAATTATAA
1 TAATAATTATAATTATAA
23649921 TAATAATTATAATTATAA
1 TAATAATTATAATTATAA
23649939 AAACTCTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TAATAATTATAATTATAA
Found at i:23650349 original size:18 final size:18
Alignment explanation
Indices: 23650328--23650368 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
23650318 TTGATACATA
23650328 TGAGGTGAAAGATATATT
1 TGAGGTGAAAGATATATT
23650346 TGAGGTGAAAGATATATT
1 TGAGGTGAAAGATATATT
23650364 TGAGG
1 TGAGG
23650369 ATGATACATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.37, C:0.00, G:0.32, T:0.32
Consensus pattern (18 bp):
TGAGGTGAAAGATATATT
Found at i:23650544 original size:26 final size:26
Alignment explanation
Indices: 23650495--23650543 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
23650485 TTTCAAAAAT
*
23650495 TAAAAGTTTTCAAACTTATATTTTAA
1 TAAAAGTTTTCAAACCTATATTTTAA
23650521 TAAAA-TTTTCAAACCTATATTTT
1 TAAAAGTTTTCAAACCTATATTTT
23650544 TTATTTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.41, C:0.10, G:0.02, T:0.47
Consensus pattern (26 bp):
TAAAAGTTTTCAAACCTATATTTTAA
Found at i:23652724 original size:2 final size:2
Alignment explanation
Indices: 23652717--23652761 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
23652707 TCTGATAAAC
23652717 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
23652759 GA G
1 GA G
23652762 GAGGGTCTAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:23653929 original size:6 final size:6
Alignment explanation
Indices: 23653918--23653944 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
23653908 TATCACCCCT
23653918 ACCGCC ACCGCC ACCGCC ACCGCC ACC
1 ACCGCC ACCGCC ACCGCC ACCGCC ACC
23653945 TCACATCACC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.67, G:0.15, T:0.00
Consensus pattern (6 bp):
ACCGCC
Found at i:23665933 original size:19 final size:18
Alignment explanation
Indices: 23665889--23665934 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
23665879 TACGGTTGTG
*
23665889 AGATTCACTTAGGATTTA
1 AGATTCACTTAGGATTCA
*
23665907 AGATTTCACTTAGGGTATCA
1 AGA-TTCACTTAGGAT-TCA
23665927 AGATTCAC
1 AGATTCAC
23665935 CTAAAATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 3 0.12
19 16 0.67
20 5 0.21
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (18 bp):
AGATTCACTTAGGATTCA
Found at i:23665970 original size:19 final size:19
Alignment explanation
Indices: 23665933--23665971 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
23665923 ATCAAGATTC
* *
23665933 ACCTAAAATTTAGGGTTTT
1 ACCTAAAATTTAAGATTTT
23665952 ACCTAAAATTTAAGATTTT
1 ACCTAAAATTTAAGATTTT
23665971 A
1 A
23665972 TTTTAGGGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.41
Consensus pattern (19 bp):
ACCTAAAATTTAAGATTTT
Found at i:23667869 original size:11 final size:12
Alignment explanation
Indices: 23667832--23667919 Score: 51
Period size: 11 Copynumber: 7.3 Consensus size: 12
23667822 TATTGACTTA
*
23667832 TTATTTATTATT
1 TTATATATTATT
*
23667844 TT-TATATTATA
1 TTATATATTATT
23667855 TTATA-ATTATT
1 TTATATATTATT
*
23667866 TTAT-TTTTATAT
1 TTATATATTAT-T
23667878 TTACTAGTATATATT
1 TTA-TA-TAT-TATT
* *
23667893 TTTTTTA-TATTT
1 TTATATATTA-TT
23667905 TTATATATT-TT
1 TTATATATTATT
23667916 TTAT
1 TTAT
23667920 TTGGTTTTGT
Statistics
Matches: 58, Mismatches: 9, Indels: 19
0.67 0.10 0.22
Matches are distributed among these distances:
11 30 0.52
12 15 0.26
13 4 0.07
14 1 0.02
15 5 0.09
16 3 0.05
ACGTcount: A:0.28, C:0.01, G:0.01, T:0.69
Consensus pattern (12 bp):
TTATATATTATT
Found at i:23667869 original size:27 final size:26
Alignment explanation
Indices: 23667839--23667921 Score: 86
Period size: 25 Copynumber: 3.2 Consensus size: 26
23667829 TTATTATTTA
23667839 TTATTTTTATATTATATTATAATTATT
1 TTATTTTTATATT-TATTATAATTATT
*
23667866 TTATTTTTATATTTACTAGT-A-TATAT
1 TTATTTTTATATTTATTA-TAATTAT-T
23667892 TT-TTTTTATATTT-TTATATATT-TT
1 TTATTTTTATATTTATTATA-ATTATT
23667916 TTATTT
1 TTATTT
23667922 GGTTTTGTTT
Statistics
Matches: 48, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
23 1 0.02
24 5 0.10
25 19 0.40
26 9 0.19
27 14 0.29
ACGTcount: A:0.28, C:0.01, G:0.01, T:0.70
Consensus pattern (26 bp):
TTATTTTTATATTTATTATAATTATT
Found at i:23668322 original size:16 final size:16
Alignment explanation
Indices: 23668303--23668336 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
23668293 TTCTATTTTA
23668303 TTTTACTTTTTACTTT
1 TTTTACTTTTTACTTT
**
23668319 TTTTTTTTTTTACTTT
1 TTTTACTTTTTACTTT
23668335 TT
1 TT
23668337 ACATTTTCCT
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:0.09, C:0.09, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTACTTTTTACTTT
Found at i:23668324 original size:23 final size:23
Alignment explanation
Indices: 23668298--23668343 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
23668288 TTTAATTCTA
*
23668298 TTTTATTTTACTTTTTACTTTTT
1 TTTTATTTTACTTTTTACATTTT
*
23668321 TTTTTTTTTACTTTTTACATTTT
1 TTTTATTTTACTTTTTACATTTT
23668344 CCTTTAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.13, C:0.09, G:0.00, T:0.78
Consensus pattern (23 bp):
TTTTATTTTACTTTTTACATTTT
Found at i:23668524 original size:23 final size:22
Alignment explanation
Indices: 23668471--23668527 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
23668461 TTATGTTTGT
*
23668471 ATGCCAGCTAAACTGAGCTTTC
1 ATGCCAGCTAAACTGAGCTTGC
* *
23668493 ATGCTAGCTAATTCTG-GACTTGC
1 ATGCCAGCTAA-ACTGAG-CTTGC
23668516 ATGCCAGCTAAA
1 ATGCCAGCTAAA
23668528 TTAAGTTTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
22 11 0.39
23 17 0.61
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (22 bp):
ATGCCAGCTAAACTGAGCTTGC
Found at i:23668723 original size:33 final size:32
Alignment explanation
Indices: 23668676--23668755 Score: 83
Period size: 33 Copynumber: 2.5 Consensus size: 32
23668666 TGGCGTCAGT
* *
23668676 TAAATTAGGCTTAAAATTTCATTGGATGCTAAC
1 TAAATTAGGCTTAAAATTTCATTAG-TGCTAAA
* *
23668709 TAAATTATGG-TTAAATTTTTATTAGTGCTAAA
1 TAAATTA-GGCTTAAAATTTCATTAGTGCTAAA
23668741 TAAATT-GAGCTTAAA
1 TAAATTAG-GCTTAAA
23668756 TTTTATTGGG
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
30 1 0.03
31 1 0.03
32 17 0.43
33 19 0.47
34 2 0.05
ACGTcount: A:0.39, C:0.07, G:0.14, T:0.40
Consensus pattern (32 bp):
TAAATTAGGCTTAAAATTTCATTAGTGCTAAA
Found at i:23668738 original size:32 final size:32
Alignment explanation
Indices: 23668676--23668759 Score: 89
Period size: 32 Copynumber: 2.6 Consensus size: 32
23668666 TGGCGTCAGT
* * *
23668676 TAAATTAGGCTTAAAATTTCATTGGATGCTAAC
1 TAAATTAGG-TTAAATTTTCATTAGATGCTAAA
*
23668709 TAAATTATGGTTAAATTTTTATTAG-TGCTAAA
1 TAAATTA-GGTTAAATTTTCATTAGATGCTAAA
*
23668741 TAAATTGAGCTTAAATTTT
1 TAAATT-AGGTTAAATTTT
23668760 ATTGGGTGCC
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
32 22 0.50
33 20 0.45
34 2 0.05
ACGTcount: A:0.37, C:0.07, G:0.13, T:0.43
Consensus pattern (32 bp):
TAAATTAGGTTAAATTTTCATTAGATGCTAAA
Found at i:23669195 original size:22 final size:22
Alignment explanation
Indices: 23669129--23669195 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 22
23669119 ACTAAATTAG
** *
23669129 GCTTATGTGCCAATTAATCTAA
1 GCTTATGTGCCAGCTAATCTGA
* *
23669151 GCTTATGTACTAGCTAAAT-TGA
1 GCTTATGTGCCAGCT-AATCTGA
23669173 GCTTATGTGCCAGCTAATCTGA
1 GCTTATGTGCCAGCTAATCTGA
23669195 G
1 G
23669196 TTTGTTTGCA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
21 3 0.08
22 30 0.83
23 3 0.08
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.34
Consensus pattern (22 bp):
GCTTATGTGCCAGCTAATCTGA
Found at i:23670232 original size:5 final size:5
Alignment explanation
Indices: 23670222--23670247 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
23670212 TTTCCACCAA
23670222 TTCTT TTCTT TTCTT TTCTT TTCTT T
1 TTCTT TTCTT TTCTT TTCTT TTCTT T
23670248 AGGATAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTCTT
Found at i:23670500 original size:310 final size:310
Alignment explanation
Indices: 23669938--23670548 Score: 1177
Period size: 310 Copynumber: 2.0 Consensus size: 310
23669928 TCTTAAAAAG
*
23669938 AGGATAATAGTCCAAATAGAAAATTAAGTAATAAGGAGGGACCAAAAGATTCATGGGTTTTATGA
1 AGGATAATAATCCAAATAGAAAATTAAGTAATAAGGAGGGACCAAAAGATTCATGGGTTTTATGA
23670003 CCATTTTCCTAAGAGAAATTCATCAATTTTAAGCCTACACACTTAATCCAATATGAACTTTTTAT
66 CCATTTTCCTAAGAGAAATTCATCAATTTTAAGCCTACACACTTAATCCAATATGAACTTTTTAT
23670068 AGGATATAACATAAGTCAAGGTTTAAAGTTTTCAAATAAAATGATAGACAGCCTCAAAACAAATG
131 AGGATATAACATAAGTCAAGGTTTAAAGTTTTCAAATAAAATGATAGACAGCCTCAAAACAAATG
* *
23670133 TTTAAGGGTAATTTAAAAGCAACTATCATCTTTCATTTGAATGATTCCCTAGGGTATATTCCTTA
196 TTTAAGGGTAATTTAAAAGCAACTATCATATTTCATTTGAAGGATTCCCTAGGGTATATTCCTTA
23670198 TTATTTTCTTGTGCTTTCCACCAATTCTTTTCTTTTCTTTTCTTTTCTTT
261 TTATTTTCTTGTGCTTTCCACCAATTCTTTTCTTTTCTTTTCTTTTCTTT
23670248 AGGATAATAATCCAAATAGAAAATTAAGTAATAAGGAGGGACCAAAAGATTCATGGGTTTTATGA
1 AGGATAATAATCCAAATAGAAAATTAAGTAATAAGGAGGGACCAAAAGATTCATGGGTTTTATGA
23670313 CCATTTTCCTAAGAGAAATTCATCAATTTTAAGCCTACACACTTAATCCAATATGAACTTTTTAT
66 CCATTTTCCTAAGAGAAATTCATCAATTTTAAGCCTACACACTTAATCCAATATGAACTTTTTAT
23670378 AGGATATAACATAAGTCAAGGTTTAAAGTTTTCAAATAAAATGATAGACAGCCTCAAAACAAATG
131 AGGATATAACATAAGTCAAGGTTTAAAGTTTTCAAATAAAATGATAGACAGCCTCAAAACAAATG
*
23670443 TTTAAGGGTAATTTAAAAGCAACTATCATATTTCATTTGAAGGATTCCTTAGGGTATATTCCTTA
196 TTTAAGGGTAATTTAAAAGCAACTATCATATTTCATTTGAAGGATTCCCTAGGGTATATTCCTTA
*
23670508 TTATTTTCTTGTGCTTTCCACCAATTCTTTTCTTTTTTTTT
261 TTATTTTCTTGTGCTTTCCACCAATTCTTTTCTTTTCTTTT
23670549 TCCTTCTTTT
Statistics
Matches: 296, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
310 296 1.00
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (310 bp):
AGGATAATAATCCAAATAGAAAATTAAGTAATAAGGAGGGACCAAAAGATTCATGGGTTTTATGA
CCATTTTCCTAAGAGAAATTCATCAATTTTAAGCCTACACACTTAATCCAATATGAACTTTTTAT
AGGATATAACATAAGTCAAGGTTTAAAGTTTTCAAATAAAATGATAGACAGCCTCAAAACAAATG
TTTAAGGGTAATTTAAAAGCAACTATCATATTTCATTTGAAGGATTCCCTAGGGTATATTCCTTA
TTATTTTCTTGTGCTTTCCACCAATTCTTTTCTTTTCTTTTCTTTTCTTT
Found at i:23670557 original size:20 final size:19
Alignment explanation
Indices: 23670531--23670606 Score: 75
Period size: 20 Copynumber: 3.9 Consensus size: 19
23670521 CTTTCCACCA
*
23670531 ATTCTTTTCTTTTTTTTTT
1 ATTCTTTTCTTTTTTTCTT
* *
23670550 CCTTCTTTTCTTTTGTTCTT
1 -ATTCTTTTCTTTTTTTCTT
23670570 ATT-TTTTCTTTTTTTCTT
1 ATTCTTTTCTTTTTTTCTT
23670588 -TTCTTACTTCTTATTTTTC
1 ATTCTT--TTCTT-TTTTTC
23670607 ATTCTTTCAT
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
17 2 0.04
18 16 0.34
19 2 0.04
20 21 0.45
21 6 0.13
ACGTcount: A:0.05, C:0.17, G:0.01, T:0.76
Consensus pattern (19 bp):
ATTCTTTTCTTTTTTTCTT
Found at i:23670582 original size:8 final size:8
Alignment explanation
Indices: 23670532--23670589 Score: 55
Period size: 8 Copynumber: 6.9 Consensus size: 8
23670522 TTTCCACCAA
23670532 TTCTTTTCT
1 TTCTTTT-T
23670541 TT-TTTTT
1 TTCTTTTT
*
23670548 TTCCTTCTT
1 TT-CTTTTT
*
23670557 TTCTTTTG
1 TTCTTTTT
23670565 TTCTTATTTT
1 TTC-T-TTTT
23670575 TTCTTTTT
1 TTCTTTTT
23670583 TTCTTTT
1 TTCTTTT
23670590 CTTACTTCTT
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
7 3 0.07
8 22 0.54
9 10 0.24
10 6 0.15
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.81
Consensus pattern (8 bp):
TTCTTTTT
Found at i:23670584 original size:26 final size:25
Alignment explanation
Indices: 23670532--23670592 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 25
23670522 TTTCCACCAA
23670532 TTCTTTTCTTTTTTTTTTCCTTCTT
1 TTCTTTTCTTTTTTTTTTCCTTCTT
* *
23670557 TTCTTTTGTTCTTATTTTTT-CTTTTT
1 TTCTTTTCTT-TT-TTTTTTCCTTCTT
23670583 TTCTTTTCTT
1 TTCTTTTCTT
23670593 ACTTCTTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 9 0.29
26 16 0.52
27 6 0.19
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.80
Consensus pattern (25 bp):
TTCTTTTCTTTTTTTTTTCCTTCTT
Found at i:23670604 original size:29 final size:30
Alignment explanation
Indices: 23670565--23670621 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
23670555 TTTTCTTTTG
* * *
23670565 TTCTTATTTTTTCTTTTTTTCTTTTCTTAC
1 TTCTTATTTTTTCATTCTTTCATTTCTTAC
23670595 TTCTTA-TTTTTCATTCTTTCATTTCTT
1 TTCTTATTTTTTCATTCTTTCATTTCTT
23670622 CTTTTTTCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 18 0.75
30 6 0.25
ACGTcount: A:0.09, C:0.18, G:0.00, T:0.74
Consensus pattern (30 bp):
TTCTTATTTTTTCATTCTTTCATTTCTTAC
Found at i:23670611 original size:20 final size:20
Alignment explanation
Indices: 23670575--23670612 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
23670565 TTCTTATTTT
*
23670575 TTCTTTTTTTCTTTTCTTAC
1 TTCTTTTTTTCTATTCTTAC
23670595 TTCTTATTTTTC-ATTCTT
1 TTCTT-TTTTTCTATTCTT
23670613 TCATTTCTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.08, C:0.18, G:0.00, T:0.74
Consensus pattern (20 bp):
TTCTTTTTTTCTATTCTTAC
Found at i:23673677 original size:23 final size:24
Alignment explanation
Indices: 23673632--23673683 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
23673622 ATTCAAGTTC
* *
23673632 AAAAAGACAACATATTATTAACAT
1 AAAAAGACAACATATTATAAACAA
* *
23673656 AAAAAGA-AACATTTTCTAAACAA
1 AAAAAGACAACATATTATAAACAA
23673679 AAAAA
1 AAAAA
23673684 TTTACAAAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 17 0.71
24 7 0.29
ACGTcount: A:0.63, C:0.12, G:0.04, T:0.21
Consensus pattern (24 bp):
AAAAAGACAACATATTATAAACAA
Found at i:23681786 original size:2 final size:2
Alignment explanation
Indices: 23681766--23681801 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
23681756 TTTGATTTAT
23681766 TA TA T- TA TA -A TA T- TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
23681802 GTGTGCTGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
1 3 0.10
2 28 0.90
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Done.