Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007931.1 Hibiscus syriacus cultivar Beakdansim tig00110339_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: 2341804
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 12
Found at i:822234 original size:21 final size:21
Alignment explanation
Indices: 822208--822261 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
822198 AGTGCAGGTG
822208 CATGGATGCACTGCAGGGATA
1 CATGGATGCACTGCAGGGATA
* *
822229 CATGGATGCACTGCAGGGGTG
1 CATGGATGCACTGCAGGGATA
822250 CATGGATGCACT
1 CATGGATGCACT
822262 TTGACACCCT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.24, C:0.20, G:0.35, T:0.20
Consensus pattern (21 bp):
CATGGATGCACTGCAGGGATA
Found at i:822362 original size:29 final size:29
Alignment explanation
Indices: 822341--822398 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
822331 AAACTTTGAA
*
822341 TAAATTCAATT-AAGTTCAAAAACATTTTG
1 TAAATTCAATTCAAGTCCAAAAACA-TTTG
822370 TAAATTCAATTCAAGTCCAAAAATCATTT
1 TAAATTCAATTCAAGTCCAAAAA-CATTT
822399 TGCCTTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 11 0.42
30 13 0.50
31 2 0.08
ACGTcount: A:0.45, C:0.14, G:0.05, T:0.36
Consensus pattern (29 bp):
TAAATTCAATTCAAGTCCAAAAACATTTG
Found at i:822409 original size:34 final size:29
Alignment explanation
Indices: 822341--822400 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 29
822331 AAACTTTGAA
*
822341 TAAATTCAATTAAGTTCAAAAACATTTTG
1 TAAATTCAATTAAGTCCAAAAACATTTTG
822370 TAAATTCAATTCAAGTCCAAAAATCATTTTG
1 TAAATTCAATT-AAGTCCAAAAA-CATTTTG
822401 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 10 0.36
31 7 0.25
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (29 bp):
TAAATTCAATTAAGTCCAAAAACATTTTG
Found at i:823716 original size:19 final size:20
Alignment explanation
Indices: 823673--823720 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
823663 TCTAAATCCT
*
823673 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
823693 ATTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
823712 TTTTCAAAA
1 TTTTCAAAA
823721 GAAAATCATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.31, C:0.10, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:825033 original size:20 final size:20
Alignment explanation
Indices: 825008--825075 Score: 91
Period size: 20 Copynumber: 3.4 Consensus size: 20
824998 TTCGTACATG
825008 GATGCACATCAGGATGCATC
1 GATGCACATCAGGATGCATC
**
825028 GATGCACAGTCTTGATGCATC
1 GATGCACA-TCAGGATGCATC
**
825049 GATGCACAGAAGGATGCATC
1 GATGCACATCAGGATGCATC
825069 GATGCAC
1 GATGCAC
825076 TAATTGCATT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 23 0.56
21 18 0.44
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.21
Consensus pattern (20 bp):
GATGCACATCAGGATGCATC
Found at i:825142 original size:42 final size:42
Alignment explanation
Indices: 825096--825192 Score: 106
Period size: 42 Copynumber: 2.3 Consensus size: 42
825086 CGGTGTTTGA
* **
825096 GTGCATGGATGCAATGCATGG-TGCATCGATGCACTAGTGTAG
1 GTGCATGGATGCAATGCAGGGATGCATCGATGCACTACAG-AG
* * * * *
825138 GTGCATGGATGTACTGTAGGGATGCATGGATGCACTACAGGG
1 GTGCATGGATGCAATGCAGGGATGCATCGATGCACTACAGAG
825180 GTGCATGGATGCA
1 GTGCATGGATGCA
825193 CTTTGCACCT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
42 30 0.67
43 15 0.33
ACGTcount: A:0.24, C:0.15, G:0.36, T:0.25
Consensus pattern (42 bp):
GTGCATGGATGCAATGCAGGGATGCATCGATGCACTACAGAG
Found at i:825165 original size:21 final size:21
Alignment explanation
Indices: 825139--825194 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
825129 CTAGTGTAGG
* **
825139 TGCATGGATGTACTGTAGGGA
1 TGCATGGATGCACTACAGGGA
*
825160 TGCATGGATGCACTACAGGGG
1 TGCATGGATGCACTACAGGGA
825181 TGCATGGATGCACT
1 TGCATGGATGCACT
825195 TTGCACCTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.23, C:0.16, G:0.36, T:0.25
Consensus pattern (21 bp):
TGCATGGATGCACTACAGGGA
Found at i:825341 original size:34 final size:29
Alignment explanation
Indices: 825273--825332 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 29
825263 AAACTTTGAA
825273 TAAATTCAATTAAGTCCAAAAACATTTTG
1 TAAATTCAATTAAGTCCAAAAACATTTTG
825302 TAAATTCAATTCAAG-CCTAAAAACCATTTTG
1 TAAATTCAATT-AAGTCC-AAAAA-CATTTTG
825333 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
29 13 0.46
30 8 0.29
31 7 0.25
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (29 bp):
TAAATTCAATTAAGTCCAAAAACATTTTG
Found at i:827705 original size:33 final size:33
Alignment explanation
Indices: 827663--827735 Score: 101
Period size: 33 Copynumber: 2.2 Consensus size: 33
827653 GGACTTGGGT
* *
827663 TGCTCCAATTCTTTCTGGACCAGGTACACGAGC
1 TGCTCCAATTCTTCCTGAACCAGGTACACGAGC
* * *
827696 TGCTCCAATTCTTCCTGAATCGGGTACACGGGC
1 TGCTCCAATTCTTCCTGAACCAGGTACACGAGC
827729 TGCTCCA
1 TGCTCCA
827736 CTTTAGATGG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.19, C:0.32, G:0.22, T:0.27
Consensus pattern (33 bp):
TGCTCCAATTCTTCCTGAACCAGGTACACGAGC
Found at i:830769 original size:31 final size:32
Alignment explanation
Indices: 830695--830769 Score: 82
Period size: 31 Copynumber: 2.4 Consensus size: 32
830685 AAAAATTATG
* *
830695 TTTTGATCACTTATATTATTGATTTATTAAAT
1 TTTTGATCACTTACATTATCGATTTATTAAAT
* * *
830727 TTTAGCT-ACTTACATTATCGA-TTATTATAT
1 TTTTGATCACTTACATTATCGATTTATTAAAT
*
830757 TTTTGGTCACTTA
1 TTTTGATCACTTA
830770 GTCGTTAACT
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
30 13 0.37
31 17 0.49
32 5 0.14
ACGTcount: A:0.28, C:0.11, G:0.08, T:0.53
Consensus pattern (32 bp):
TTTTGATCACTTACATTATCGATTTATTAAAT
Found at i:832057 original size:21 final size:19
Alignment explanation
Indices: 832004--832053 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 19
831994 TTTATAAGTA
*
832004 AAATAT-TAAAGA-AATAT
1 AAATATATAAAAATAATAT
* *
832021 ATATATATAATAATAATAT
1 AAATATATAAAAATAATAT
832040 AAATATAGTAAAAA
1 AAATATA-TAAAAA
832054 ATAAATGAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
17 5 0.20
18 4 0.16
19 11 0.44
20 5 0.20
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (19 bp):
AAATATATAAAAATAATAT
Found at i:832130 original size:55 final size:58
Alignment explanation
Indices: 832017--832130 Score: 130
Period size: 61 Copynumber: 2.0 Consensus size: 58
832007 TATTAAAGAA
*
832017 ATATATATATATAATAATAATATAAATATAGTAAAAAATAAATGAAAATAATTTAATATAT
1 ATATATACATATAATAATAATATAAATATAGTAAAAAATAAATG-AAATAA--TAATATAT
*
832078 ATATATACATATAATAATAATA-ACATGA-A-TAATAAAATAAATG-AATAA-AATAT
1 ATATATACATATAATAATAATATAAAT-ATAGTAA-AAAATAAATGAAATAATAATAT
832131 CCATATAATA
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
55 5 0.10
58 5 0.10
59 3 0.06
60 14 0.29
61 22 0.45
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (58 bp):
ATATATACATATAATAATAATATAAATATAGTAAAAAATAAATGAAATAATAATATAT
Found at i:833437 original size:105 final size:105
Alignment explanation
Indices: 833133--833688 Score: 746
Period size: 105 Copynumber: 5.3 Consensus size: 105
833123 GTATTGTTCC
* * ** * *
833133 GAGTCCAATATCATTCGTCGTGAAGTTGAAATTGGCTCTG-GAACCGGGAAATTATTTGTTGACA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAG-ATTGGGAAGTT-GTTGTTGACA
* * * * *
833197 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
64 AGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
833239 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGA-A-T--GAAATT-TTCTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
* *
833299 TAGCGGTCCCTTCGTCGTGGAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
833339 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
833404 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
833444 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
833509 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * * *
833549 AAGTCCAATATCATTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTAACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
* * * *
833614 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
833654 GATTGTCACGATATCCTCCGTCGTGGAGTTGAAAT
1 GA--GTC-CAATATCCTTCGTTGTGAAGTTGAAAT
833689 CGCGGATGTT
Statistics
Matches: 406, Mismatches: 35, Indels: 16
0.89 0.08 0.04
Matches are distributed among these distances:
100 82 0.20
101 1 0.00
102 7 0.02
104 5 0.01
105 250 0.62
106 36 0.09
107 3 0.01
108 22 0.05
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:833904 original size:36 final size:36
Alignment explanation
Indices: 833857--833932 Score: 109
Period size: 36 Copynumber: 2.1 Consensus size: 36
833847 TGTTTGGAGA
* *
833857 GAAACTGTCTCAAAG-GAGACAAAATTCGTTTCAAGG
1 GAAACTATCTC-AAGCGAGACAAAATTCATTTCAAGG
*
833893 GAAACTATCTCAAGCGAGATAAAATTCATTTCAAGG
1 GAAACTATCTCAAGCGAGACAAAATTCATTTCAAGG
833929 GAAA
1 GAAA
833933 TGTTTTCAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
35 3 0.08
36 33 0.92
ACGTcount: A:0.42, C:0.16, G:0.20, T:0.22
Consensus pattern (36 bp):
GAAACTATCTCAAGCGAGACAAAATTCATTTCAAGG
Found at i:834042 original size:104 final size:104
Alignment explanation
Indices: 833832--834149 Score: 516
Period size: 104 Copynumber: 3.1 Consensus size: 104
833822 TTCGTTAAAT
* ** * *
833832 TGTTTTCAAAGTTTATGTTTGGAGAGAAACTGTCTCAAAGGAGACAAAA--TTC-GTTTCAAGGG
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
* *
833894 AAACTATCTCAAGCGAGATAAAATTCATTTCAAGGGAAA
66 AAACTATCTCAAGAGAGAAAAAATTCATTTCAAGGGAAA
*
833933 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTTGAGGG
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
*
833998 AAACTATCTCAAGAGAGAAAAAAATCATTTCAAGGGAAA
66 AAACTATCTCAAGAGAGAAAAAATTCATTTCAAGGGAAA
834037 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
* *
834102 AAACTATCTCAGGAGAGAAAAAATTAATTTCAAGGGAAA
66 AAACTATCTCAAGAGAGAAAAAATTCATTTCAAGGGAAA
834141 TGTTTTCAA
1 TGTTTTCAA
834150 GAGAAACTGT
Statistics
Matches: 201, Mismatches: 13, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
101 45 0.22
103 3 0.01
104 153 0.76
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (104 bp):
TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
AAACTATCTCAAGAGAGAAAAAATTCATTTCAAGGGAAA
Found at i:834106 original size:39 final size:39
Alignment explanation
Indices: 834052--834126 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
834042 TCAATGTTTA
* *
834052 TGTTTCAAGAGAAACTGTCTCAAGG-GAGACAAAATTTTC
1 TGTTTCAAGAGAAACTATCTC-AGGAGAGAAAAAATTTTC
* *
834091 TGTTTCGAGGGAAACTATCTCAGGAGAGAAAAAATT
1 TGTTTCAAGAGAAACTATCTCAGGAGAGAAAAAATT
834127 AATTTCAAGG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 3 0.10
39 28 0.90
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.27
Consensus pattern (39 bp):
TGTTTCAAGAGAAACTATCTCAGGAGAGAAAAAATTTTC
Found at i:834326 original size:36 final size:36
Alignment explanation
Indices: 834273--834380 Score: 110
Period size: 36 Copynumber: 3.0 Consensus size: 36
834263 GTGAAAATGG
* *
834273 TCTCAAGCGAGACAAATCTTGTTTTAAGAAAAACAA
1 TCTCAAGTGAAACAAATCTTGTTTTAAGAAAAACAA
** * * **
834309 TCTTGAGTGAAATAAATCTTCTTTCGAGAAAAACAA
1 TCTCAAGTGAAACAAATCTTGTTTTAAGAAAAACAA
* *
834345 TCTCAAGTGAGACAAAGT-ATGTTTTAAGAAAAACAA
1 TCTCAAGTGAAACAAA-TCTTGTTTTAAGAAAAACAA
834381 ATTTAAGTGA
Statistics
Matches: 55, Mismatches: 16, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
36 54 0.98
37 1 0.02
ACGTcount: A:0.44, C:0.14, G:0.15, T:0.27
Consensus pattern (36 bp):
TCTCAAGTGAAACAAATCTTGTTTTAAGAAAAACAA
Found at i:834368 original size:72 final size:75
Alignment explanation
Indices: 834220--834380 Score: 204
Period size: 72 Copynumber: 2.2 Consensus size: 75
834210 TAAAATCTTC
* * ***
834220 TTAAAAAAAACAACCTTGAGTGAAATGAAATGCCTTCTTTCGAGTGAAAATGGTCTCAAGCGAGA
1 TTAAGAAAAACAACCTTGAGTGAAATGAAAT-CCTTCTTTCGAGTAAAAACAATCTCAAGCGAGA
*
834285 CAAATCTTGTT
65 CAAATCATGTT
* *
834296 TTAAGAAAAACAATCTTGAGTGAAAT-AAAT-CTTCTTTCGAG-AAAAACAATCTCAAGTGAGAC
1 TTAAGAAAAACAACCTTGAGTGAAATGAAATCCTTCTTTCGAGTAAAAACAATCTCAAGCGAGAC
834358 AAAGT-ATGTT
66 AAA-TCATGTT
834368 TTAAGAAAAACAA
1 TTAAGAAAAACAA
834381 ATTTAAGTGA
Statistics
Matches: 76, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
72 36 0.47
73 12 0.16
75 4 0.05
76 24 0.32
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (75 bp):
TTAAGAAAAACAACCTTGAGTGAAATGAAATCCTTCTTTCGAGTAAAAACAATCTCAAGCGAGAC
AAATCATGTT
Found at i:835844 original size:183 final size:183
Alignment explanation
Indices: 835536--836072 Score: 941
Period size: 183 Copynumber: 2.9 Consensus size: 183
835526 ATCAGGTTTA
* * *
835536 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGACCTGACAAAAGCAGAGGAGCAAACATCGAATT
1 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
* ** *
835601 GCCAAGTGTCCGAGCAATGTCAT-GATTTGAATGTAATCTATTCATAAAGCTAGGGCTTTCGAGT
66 GCCAAGTGTCCGAGCAGTGTCATAG-TTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGT
*
835665 TTCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGGGGGACAAATC
130 TTCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
835719 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
1 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
*
835784 GTCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
66 GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
* *
835849 TTCTCTATAACCAATTACCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
131 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
*
835902 ACTGAAGGGTTCATCTCATCACAAGGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
1 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
*
835967 ACCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
66 GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
836032 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTA
131 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTA
836073 CGGATTTAAT
Statistics
Matches: 337, Mismatches: 16, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
183 336 1.00
184 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (183 bp):
ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
Found at i:840131 original size:12 final size:11
Alignment explanation
Indices: 840042--840136 Score: 61
Period size: 12 Copynumber: 8.4 Consensus size: 11
840032 ATATATATAT
840042 AATAATAATAA
1 AATAATAATAA
*
840053 AAT-ATAGTAA
1 AATAATAATAA
*
840063 AAAAATAAATGAA
1 AATAAT-AAT-AA
*
840076 AATAAT-TTAA
1 AATAATAATAA
*
840086 TAT-ATATATACA
1 AATAATA-ATA-A
*
840098 TATAATAATAA
1 AATAATAATAA
*
840109 CATGAATAATAA
1 AAT-AATAATAA
840121 AATAATGAATAA
1 AATAAT-AATAA
840133 AATA
1 AATA
840137 TCCATATAAT
Statistics
Matches: 66, Mismatches: 9, Indels: 17
0.72 0.10 0.18
Matches are distributed among these distances:
9 2 0.03
10 12 0.18
11 14 0.21
12 28 0.42
13 10 0.15
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.29
Consensus pattern (11 bp):
AATAATAATAA
Found at i:840543 original size:37 final size:37
Alignment explanation
Indices: 840493--840597 Score: 129
Period size: 37 Copynumber: 2.8 Consensus size: 37
840483 GTGCTTGTGG
* * * *
840493 ATCCTATCTTTAGGAATTTAAATCTTAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
** * * *
840530 ATCCTATTTTTAGGAGTTTGAATCCTAACAAAATTTT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
840567 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
840598 GATGAAAATG
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.30, C:0.14, G:0.13, T:0.42
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
Found at i:849520 original size:17 final size:17
Alignment explanation
Indices: 849471--849520 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
849461 TTGTTCATGT
849471 TTTGGTTTCTATGAATG
1 TTTGGTTTCTATGAATG
*
849488 TTTGAG----TATCAATG
1 TTTG-GTTTCTATGAATG
849502 TTTGGTTTCTATGAATG
1 TTTGGTTTCTATGAATG
849519 TT
1 TT
849521 AGAAGAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 10
0.68 0.05 0.26
Matches are distributed among these distances:
13 1 0.04
14 11 0.42
17 13 0.50
18 1 0.04
ACGTcount: A:0.20, C:0.06, G:0.22, T:0.52
Consensus pattern (17 bp):
TTTGGTTTCTATGAATG
Found at i:849588 original size:9 final size:9
Alignment explanation
Indices: 849572--849602 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
849562 ATAGTATCAT
849572 CCGCTCCAC
1 CCGCTCCAC
*
849581 CTGCTCCAC
1 CCGCTCCAC
849590 CCGCTCCAC
1 CCGCTCCAC
849599 CCGC
1 CCGC
849603 GAATGATGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.10, C:0.65, G:0.13, T:0.13
Consensus pattern (9 bp):
CCGCTCCAC
Found at i:857924 original size:15 final size:15
Alignment explanation
Indices: 857904--857935 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
857894 AAAATCTTTC
*
857904 TTTCCCGTTCTTGAT
1 TTTCCCGTTCTGGAT
857919 TTTCCCGTTCTGGAT
1 TTTCCCGTTCTGGAT
857934 TT
1 TT
857936 CGATCTGCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.25, G:0.16, T:0.53
Consensus pattern (15 bp):
TTTCCCGTTCTGGAT
Found at i:862486 original size:44 final size:44
Alignment explanation
Indices: 862423--862509 Score: 165
Period size: 44 Copynumber: 2.0 Consensus size: 44
862413 ACTGCTGCTC
*
862423 AACAATAATCGATTTAAATATAATTTCATACATTATTTATAAAA
1 AACAATAATCGATTTAAATATAAATTCATACATTATTTATAAAA
862467 AACAATAATCGATTTAAATATAAATTCATACATTATTTATAAA
1 AACAATAATCGATTTAAATATAAATTCATACATTATTTATAAA
862510 TTTCAACATG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.51, C:0.09, G:0.02, T:0.38
Consensus pattern (44 bp):
AACAATAATCGATTTAAATATAAATTCATACATTATTTATAAAA
Found at i:863697 original size:17 final size:16
Alignment explanation
Indices: 863677--863712 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
863667 ATTCATAATA
*
863677 ATAAATAATATTATAAC
1 ATAAATAATA-AATAAC
863694 ATAAATAATAAATAAC
1 ATAAATAATAAATAAC
863710 ATA
1 ATA
863713 TTAAATTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.31
Consensus pattern (16 bp):
ATAAATAATAAATAAC
Found at i:864144 original size:3 final size:3
Alignment explanation
Indices: 864136--864237 Score: 143
Period size: 3 Copynumber: 34.0 Consensus size: 3
864126 TTTTTTCATT
**
864136 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA TTA AAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
**
864183 TTA TTA TTA TTA TTA TTA AAA TTA TTA TTA TATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
*
864229 TTA TAA TTA
1 TTA TTA TTA
864238 AATAAATAAT
Statistics
Matches: 87, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
2 2 0.02
3 82 0.94
4 3 0.03
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:865542 original size:11 final size:11
Alignment explanation
Indices: 865518--865551 Score: 59
Period size: 11 Copynumber: 3.0 Consensus size: 11
865508 ATATGTTTAA
865518 ATTATTACTTTT
1 ATTATTA-TTTT
865530 ATTATTATTTT
1 ATTATTATTTT
865541 ATTATTATTTT
1 ATTATTATTTT
865552 CATACTAGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 15 0.68
12 7 0.32
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (11 bp):
ATTATTATTTT
Found at i:865544 original size:23 final size:23
Alignment explanation
Indices: 865480--865551 Score: 62
Period size: 23 Copynumber: 3.2 Consensus size: 23
865470 TTAATTGCAA
865480 TTTTATT-TTATTTTTATTATTAC
1 TTTTATTATTA-TTTTATTATTAC
* **
865503 TTTCGA-TATGT-TTAAATTATTAC
1 TTT-TATTAT-TATTTTATTATTAC
865526 TTTTATTATTATTTTATTATTA-
1 TTTTATTATTATTTTATTATTAC
865548 TTTT
1 TTTT
865552 CATACTAGTC
Statistics
Matches: 38, Mismatches: 6, Indels: 11
0.69 0.11 0.20
Matches are distributed among these distances:
22 6 0.16
23 29 0.76
24 2 0.05
25 1 0.03
ACGTcount: A:0.25, C:0.04, G:0.03, T:0.68
Consensus pattern (23 bp):
TTTTATTATTATTTTATTATTAC
Found at i:874386 original size:22 final size:22
Alignment explanation
Indices: 874356--874412 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 22
874346 ACATCTACAT
*
874356 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAAATTCTC
* *
874378 TCTTTAAAGATAATAAATTCTC
1 TCTTCAAAGATGATAAATTCTC
874400 TCTTCAAAGATGA
1 TCTTCAAAGATGA
874413 AAGCTTTATT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (22 bp):
TCTTCAAAGATGATAAATTCTC
Found at i:875234 original size:45 final size:45
Alignment explanation
Indices: 875170--875373 Score: 309
Period size: 45 Copynumber: 4.5 Consensus size: 45
875160 AGGAGCTTTT
* *
875170 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAATGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCA
*
875215 TGATGTTTTCAAAACCTTCGGGTCATTTGTAAGACCTACAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCA
** *
875260 TGATGTTTTCAAAACCTTCGATTCATCTGTAAGACCTATAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCA
* **
875305 TGATGTTTTCAAAACCTTCGGGCCATCCATAAGACCTACAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCA
875350 TGATGTTTTCAAAAAGCCTTCGGG
1 TGATGTTTTC-AAAA-CCTTCGGG
875374 AGCTTTTTGA
Statistics
Matches: 144, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 132 0.92
46 4 0.03
47 8 0.06
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCA
Found at i:875436 original size:76 final size:74
Alignment explanation
Indices: 875305--875447 Score: 214
Period size: 76 Copynumber: 1.9 Consensus size: 74
875295 CTATAGTGCA
*
875305 TGATGTTTTCAAAACCTTCGGGCCATCCATAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTT
1 TGATATTTTCAAAACCTTCGGGCCATCCATAAGACCTACAGTGCATGATGTTTTC-AAAA-CCTT
875370 CGGGAGCTTTT
64 CGGGAGCTTTT
* * ** *
875381 TGATATTTTCAAAACCTTGGGGTCATCTGTAAGACCTACAGTTCATGATGTTTTCAAAACCTTCG
1 TGATATTTTCAAAACCTTCGGGCCATCCATAAGACCTACAGTGCATGATGTTTTCAAAACCTTCG
875446 GG
66 GG
875448 TCATCTGTAA
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
74 8 0.13
75 4 0.07
76 49 0.80
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.33
Consensus pattern (74 bp):
TGATATTTTCAAAACCTTCGGGCCATCCATAAGACCTACAGTGCATGATGTTTTCAAAACCTTCG
GGAGCTTTT
Found at i:875450 original size:45 final size:45
Alignment explanation
Indices: 875381--875494 Score: 165
Period size: 45 Copynumber: 2.5 Consensus size: 45
875371 GGGAGCTTTT
* * * *
875381 TGATATTTTCAAAACCTTGGGGTCATCTGTAAGACCTACAGTTCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAATGCA
875426 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAATGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAATGCA
*
875471 GGATGTTTTCAAAAAGCCTTCGGG
1 TGATGTTTTC-AAAA-CCTTCGGG
875495 AGCTTTTTGA
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
45 50 0.81
46 4 0.06
47 8 0.13
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAATGCA
Found at i:875479 original size:121 final size:121
Alignment explanation
Indices: 875260--875570 Score: 460
Period size: 121 Copynumber: 2.6 Consensus size: 121
875250 CTACAGTGCA
* ** *
875260 TGATGTTTTCAAAACCTTCGATTCATCTGTAAGACCTATAGTGCATGATGTTTTCAAAACCTTCG
1 TGATATTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAACCTTCG
* *
875325 GGCCATCCATAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTT
66 GGCCATCCATAAGACCTACAATGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTT
* *
875381 TGATATTTTCAAAACCTTGGGGTCATCTGTAAGACCTACAGTTCATGATGTTTTCAAAACCTTCG
1 TGATATTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAACCTTCG
* **
875446 GGTCATCTGTAAGACCTACAATGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTT
66 GGCCATCCATAAGACCTACAATGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTT
* * * * *
875502 TGATATTTTCAAAGCCTTCTGGTCATCTGTAAGACCTACAATGCAGGATATTTTCAAAAAGCCTT
1 TGATATTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTC-AAAA-CCTT
875567 CGGG
64 CGGG
875571 AGCTTTTTGA
Statistics
Matches: 170, Mismatches: 18, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
121 158 0.93
122 4 0.02
123 8 0.05
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.33
Consensus pattern (121 bp):
TGATATTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAACCTTCG
GGCCATCCATAAGACCTACAATGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTT
Found at i:875511 original size:76 final size:76
Alignment explanation
Indices: 875426--875644 Score: 370
Period size: 76 Copynumber: 2.9 Consensus size: 76
875416 CTACAGTTCA
*
875426 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAATGCAGGATGTTTTCAAAAAGCCTT
1 TGATATTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAATGCAGGATGTTTTCAAAAAGCCTT
875491 CGGGAGCTTTT
66 CGGGAGCTTTT
* * *
875502 TGATATTTTCAAAGCCTTCTGGTCATCTGTAAGACCTACAATGCAGGATATTTTCAAAAAGCCTT
1 TGATATTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAATGCAGGATGTTTTCAAAAAGCCTT
875567 CGGGAGCTTTT
66 CGGGAGCTTTT
* *
875578 TGATATTTTCAAAACCTTCGGGACATCTGTAAGACCTACAATGCATGATGTTTTC--AAAGCCTT
1 TGATATTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAATGCAGGATGTTTTCAAAAAGCCTT
875641 CGGG
66 CGGG
875645 TCATCTGTAA
Statistics
Matches: 134, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
74 12 0.09
76 122 0.91
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (76 bp):
TGATATTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAATGCAGGATGTTTTCAAAAAGCCTT
CGGGAGCTTTT
Found at i:875645 original size:197 final size:197
Alignment explanation
Indices: 875305--875664 Score: 594
Period size: 197 Copynumber: 1.8 Consensus size: 197
875295 CTATAGTGCA
* * * *
875305 TGATGTTTTCAAAACCTTCGGGCCATCCATAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTT
1 TGATATTTTCAAAACCTTCGGGCCATCCATAAGACCTACAATGCAGGATATTTTCAAAAAGCCTT
* * * *
875370 CGGGAGCTTTTTGATATTTTCAAAACCTTGGGGTCATCTGTAAGACCTACAGTTCATGATGTTTT
66 CGGGAGCTTTTTGATATTTTCAAAACCTTCGGGACATCTGTAAGACCTACAATGCATGATGTTTT
875435 CAAAACCTTCGGGTCATCTGTAAGACCTACAATGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTT
131 CAAAACCTTCGGGTCATCTGTAAGACCTACAATGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTT
875500 TT
196 TT
* * * **
875502 TGATATTTTCAAAGCCTTCTGGTCATCTGTAAGACCTACAATGCAGGATATTTTCAAAAAGCCTT
1 TGATATTTTCAAAACCTTCGGGCCATCCATAAGACCTACAATGCAGGATATTTTCAAAAAGCCTT
875567 CGGGAGCTTTTTGATATTTTCAAAACCTTCGGGACATCTGTAAGACCTACAATGCATGATGTTTT
66 CGGGAGCTTTTTGATATTTTCAAAACCTTCGGGACATCTGTAAGACCTACAATGCATGATGTTTT
*
875632 CAAAGCCTTCGGGTCATCTGTAAGACCTACAAT
131 CAAAACCTTCGGGTCATCTGTAAGACCTACAAT
875665 TCAAGATAAT
Statistics
Matches: 149, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
197 149 1.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.33
Consensus pattern (197 bp):
TGATATTTTCAAAACCTTCGGGCCATCCATAAGACCTACAATGCAGGATATTTTCAAAAAGCCTT
CGGGAGCTTTTTGATATTTTCAAAACCTTCGGGACATCTGTAAGACCTACAATGCATGATGTTTT
CAAAACCTTCGGGTCATCTGTAAGACCTACAATGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTT
TT
Found at i:875650 original size:45 final size:45
Alignment explanation
Indices: 875578--875664 Score: 147
Period size: 45 Copynumber: 1.9 Consensus size: 45
875568 GGGAGCTTTT
875578 TGATATTTTCAAAACCTTCGGGACATCTGTAAGACCTACAATGCA
1 TGATATTTTCAAAACCTTCGGGACATCTGTAAGACCTACAATGCA
* * *
875623 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAAT
1 TGATATTTTCAAAACCTTCGGGACATCTGTAAGACCTACAAT
875665 TCAAGATAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (45 bp):
TGATATTTTCAAAACCTTCGGGACATCTGTAAGACCTACAATGCA
Found at i:876011 original size:21 final size:18
Alignment explanation
Indices: 875972--876006 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
875962 ATTTTTCATT
*
875972 TTATTTTTATTATTAAAA
1 TTATTATTATTATTAAAA
875990 TTATTATTATTATTAAA
1 TTATTATTATTATTAAA
876007 TAAATAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TTATTATTATTATTAAAA
Found at i:876461 original size:20 final size:20
Alignment explanation
Indices: 876438--876480 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
876428 AAGCAAAATG
* * *
876438 ACAACATCAACAGCAAGCAA
1 ACAACACCAACAACAACCAA
*
876458 ACAATACCAACAACAACCAA
1 ACAACACCAACAACAACCAA
876478 ACA
1 ACA
876481 CCAACCGAGA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.58, C:0.33, G:0.05, T:0.05
Consensus pattern (20 bp):
ACAACACCAACAACAACCAA
Found at i:876697 original size:13 final size:13
Alignment explanation
Indices: 876679--876705 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
876669 GACCACCATA
876679 GATGGTGGTCGGC
1 GATGGTGGTCGGC
876692 GATGGTGGTCGGC
1 GATGGTGGTCGGC
876705 G
1 G
876706 CCGGAGTAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.07, C:0.15, G:0.56, T:0.22
Consensus pattern (13 bp):
GATGGTGGTCGGC
Found at i:877305 original size:12 final size:11
Alignment explanation
Indices: 877288--877321 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
877278 GATATGTTTA
877288 AATTATTACTTT
1 AATTATTA-TTT
877300 AATTATTATTT
1 AATTATTATTT
*
877311 TATTATTATTT
1 AATTATTATTT
877322 CATACTAGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 13 0.62
12 8 0.38
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (11 bp):
AATTATTATTT
Found at i:877351 original size:2 final size:2
Alignment explanation
Indices: 877332--877371 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
877322 CATACTAGTC
* *
877332 AT AT AA AT AT AA 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
877372 TTGTTTAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:878260 original size:1 final size:1
Alignment explanation
Indices: 878254--878279 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
878244 TGAAAGCCGC
878254 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
878280 ACAATTTTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:891945 original size:12 final size:12
Alignment explanation
Indices: 891928--891952 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
891918 CGTATGTTTT
891928 ATCTGATTTACA
1 ATCTGATTTACA
891940 ATCTGATTTACA
1 ATCTGATTTACA
891952 A
1 A
891953 AGATTTAAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (12 bp):
ATCTGATTTACA
Found at i:893218 original size:13 final size:13
Alignment explanation
Indices: 893200--893225 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
893190 ATCTTCCCCT
893200 ACCCTTGGTATAG
1 ACCCTTGGTATAG
893213 ACCCTTGGTATAG
1 ACCCTTGGTATAG
893226 GTTTGAGTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (13 bp):
ACCCTTGGTATAG
Found at i:895511 original size:21 final size:21
Alignment explanation
Indices: 895487--895549 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
895477 GTCGAGGGAT
895487 TATATGAGGTTCTTTGGGACA
1 TATATGAGGTTCTTTGGGACA
* * *
895508 TATACGAGGTCCTTCGGGACA
1 TATATGAGGTTCTTTGGGACA
*
895529 TACATGAGG-TCATTTGGGACA
1 TATATGAGGTTC-TTTGGGACA
895550 AATTTCATAT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
20 1 0.03
21 33 0.97
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (21 bp):
TATATGAGGTTCTTTGGGACA
Found at i:902522 original size:21 final size:21
Alignment explanation
Indices: 902498--902560 Score: 99
Period size: 21 Copynumber: 3.0 Consensus size: 21
902488 GTCGAGGGAT
*
902498 TATATGAGGTCCTTCGGGACA
1 TATATGAGGTCATTCGGGACA
*
902519 TATATGAGGTCTTTCGGGACA
1 TATATGAGGTCATTCGGGACA
*
902540 TACATGAGGTCATTCGGGACA
1 TATATGAGGTCATTCGGGACA
902561 AATTTCATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (21 bp):
TATATGAGGTCATTCGGGACA
Found at i:916931 original size:3 final size:3
Alignment explanation
Indices: 916912--916965 Score: 83
Period size: 3 Copynumber: 18.0 Consensus size: 3
916902 TTCCCTCCAT
*
916912 TTA TTA CTA TTA TTTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
916957 TTA TTA TTA
1 TTA TTA TTA
916966 CAAACGAGCC
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
2 2 0.04
3 42 0.89
4 3 0.06
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:922412 original size:15 final size:15
Alignment explanation
Indices: 922392--922423 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
922382 ATCAATACCT
922392 TTTTGCATACATGCA
1 TTTTGCATACATGCA
*
922407 TTTTGCATACATTCA
1 TTTTGCATACATGCA
922422 TT
1 TT
922424 ATTCATTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (15 bp):
TTTTGCATACATGCA
Found at i:929784 original size:13 final size:12
Alignment explanation
Indices: 929762--929792 Score: 53
Period size: 13 Copynumber: 2.5 Consensus size: 12
929752 ATTATGCTTG
929762 AAAAAAAAAGAA
1 AAAAAAAAAGAA
929774 AAAAGAAAAAGAA
1 AAAA-AAAAAGAA
929787 AAAAAA
1 AAAAAA
929793 GGGGTCAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.33
13 12 0.67
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAGAA
Found at i:930943 original size:93 final size:93
Alignment explanation
Indices: 930784--931345 Score: 921
Period size: 93 Copynumber: 6.0 Consensus size: 93
930774 CGTAGACTCA
* * *
930784 ATAGCATCTTCTGGAAGTGTTCTTTGAGTCATTTGATCTGGTTTGGTATGAACCCTAAAAACCAA
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTTGGTATGAACCCTAAAAACCAA
930849 TCATTGAATTTGAAAAATGAATGTGCTC
66 TCATTGAATTTGAAAAATGAATGTGCTC
*
930877 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCTAAAAACCAA
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTTGGTATGAACCCTAAAAACCAA
*
930942 TCATTGAATTTGAAAAATAAATGTGCTC
66 TCATTGAATTTGAAAAATGAATGTGCTC
* ***
930970 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAACATGAACCCTAAAAACCAA
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTTGGTATGAACCCTAAAAACCAA
* *
931035 TCATTGAATTTGGAAGATGAATGTGCTC
66 TCATTGAATTTGAAAAATGAATGTGCTC
931063 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTTGGTATGAACCCTAAAAACCAA
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTTGGTATGAACCCTAAAAACCAA
931128 TCATTGAATTTGAAAAATGAATGTGCTC
66 TCATTGAATTTGAAAAATGAATGTGCTC
*
931156 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTTGGTATGAACCAC-AAAACCCA
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTTGGTATGAACC-CTAAAAACCA
* * * *
931220 ATAATTGGATTTGGAATATGAATGTGCTC
65 ATCATTGAATTTGAAAAATGAATGTGCTC
*
931249 ATAGCATTTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTTGGTATGAACCAC-AAAAACCA
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTTGGTATGAACC-CTAAAAACCA
* *
931313 ATCATTGGATTTGAAAGATGAATGTGCTC
65 ATCATTGAATTTGAAAAATGAATGTGCTC
931342 ATAG
1 ATAG
931346 TAGAAATAAG
Statistics
Matches: 443, Mismatches: 25, Indels: 2
0.94 0.05 0.00
Matches are distributed among these distances:
93 442 1.00
94 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.35
Consensus pattern (93 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTTGGTATGAACCCTAAAAACCAA
TCATTGAATTTGAAAAATGAATGTGCTC
Found at i:932348 original size:116 final size:116
Alignment explanation
Indices: 932144--932590 Score: 615
Period size: 116 Copynumber: 3.9 Consensus size: 116
932134 ATTCAAATCT
* * ** *
932144 ATCATTTGATGGATTGACATTGTCAG-GTCGAGTTCATAATGAGAAGAACTCATCATCTGAAGAA
1 ATCATTTGATGGATTAACATTGCCAGAG-AAAGTTCATAATGAGAAGAACTCGTCATCTGAAGAA
932208 GGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTC
65 GGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTC
**
932260 ATCATTTGATGGATTAACATTGCCAG-GTCGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAA
1 ATCATTTGATGGATTAACATTGCCAGAG-AAAGTTCATAATGAGAAGAACTCGTCATCTGAAGAA
*
932324 GGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATTTAAATTC
65 GGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTC
* *
932376 ATCATTTGATGGATTGACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAG
1 ATCATTTGATGGATTAACATTGCCAGAGAAAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAG
* * *
932441 GAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCC
66 GAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTC
* * * * *
932492 ATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAA--C-TCATCT---GAA-
1 ATCATTTGATGGATTAACATTGCCAGAGAAAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAG
* * **
932550 GAAGAAGAAGTTCAAAATAAGAAGAGCTTGTTCAACCTTTT
66 GAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT
932591 ACATAATTTT
Statistics
Matches: 309, Mismatches: 21, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
109 37 0.12
110 3 0.01
113 6 0.02
114 1 0.00
116 261 0.84
117 1 0.00
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.30
Consensus pattern (116 bp):
ATCATTTGATGGATTAACATTGCCAGAGAAAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAG
GAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTC
Found at i:932831 original size:3 final size:3
Alignment explanation
Indices: 932825--932873 Score: 73
Period size: 3 Copynumber: 16.7 Consensus size: 3
932815 CATTTACTAC
* *
932825 TAT TAT TAT TAT TAT TAT TAT TAT TGT TGT TAT TAT TAT T-T TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
932872 TA
1 TA
932874 CAAACGGGCC
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
2 2 0.05
3 41 0.95
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:933342 original size:21 final size:21
Alignment explanation
Indices: 933300--933347 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
933290 ACAGAGAGAC
*
933300 AAAACCGAGAGCAAAGATACA
1 AAAACCGAGAGCAAAGACACA
*
933321 AAAACGGAGAGCAACA-ACACA
1 AAAACCGAGAGCAA-AGACACA
*
933342 ACAACC
1 AAAACC
933348 AGCAAACAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 21 0.95
22 1 0.05
ACGTcount: A:0.56, C:0.25, G:0.17, T:0.02
Consensus pattern (21 bp):
AAAACCGAGAGCAAAGACACA
Found at i:934297 original size:24 final size:22
Alignment explanation
Indices: 934270--934319 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
934260 TATATATAAT
934270 AATAAATAATAATTTATATTTTTC
1 AATAAAT--TAATTTATATTTTTC
* *
934294 AATAAATTATTTTTTATTTTTC
1 AATAAATTAATTTATATTTTTC
934316 AATA
1 AATA
934320 TCGAAGAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 17 0.71
24 7 0.29
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (22 bp):
AATAAATTAATTTATATTTTTC
Found at i:938974 original size:63 final size:63
Alignment explanation
Indices: 938905--939030 Score: 234
Period size: 63 Copynumber: 2.0 Consensus size: 63
938895 TATATTTTCT
*
938905 TTAAAAAATCCAAATCAAAATAAGATAAACTTTGAAATATTACCTGAGTTTAGTTAAATAAAA
1 TTAAAAAATCAAAATCAAAATAAGATAAACTTTGAAATATTACCTGAGTTTAGTTAAATAAAA
*
938968 TTAAAAAATCAAAATCAAAATAATATAAACTTTGAAATATTACCTGAGTTTAGTTAAATAAAA
1 TTAAAAAATCAAAATCAAAATAAGATAAACTTTGAAATATTACCTGAGTTTAGTTAAATAAAA
939031 CGGAAACAAA
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 61 1.00
ACGTcount: A:0.53, C:0.09, G:0.07, T:0.31
Consensus pattern (63 bp):
TTAAAAAATCAAAATCAAAATAAGATAAACTTTGAAATATTACCTGAGTTTAGTTAAATAAAA
Found at i:943667 original size:41 final size:41
Alignment explanation
Indices: 943622--943843 Score: 216
Period size: 41 Copynumber: 5.4 Consensus size: 41
943612 TAGCGGTATT
*
943622 TTTAGCGGCGTTTTTATACAAACGCCGCTATAGACTCGTAC
1 TTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTAC
* * * * *
943663 TTTAGTGAC-TCCTTTAGTAGCATACGCCTCTATAGACTCATAC
1 TTTAGTGGCGT-TTTTA-TA-CAAACGCCGCTATAGACTCGTAC
* *
943706 TTTAGTGGTGTTTTTATACAAAC-CCTGCTATAGACTCGTAA
1 TTTAGTGGCGTTTTTATACAAACGCC-GCTATAGACTCGTAC
* * * ** *
943747 TTTAGTGGCGTTTCTATATAAATGGTGCTAAAGACTCGTA-
1 TTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTAC
* * *
943787 TGTTAGTGGCGTTTCTATACAAACGCCGCTAAAGACTCATAC
1 T-TTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTAC
*
943829 TTTAGTGGCATTTTT
1 TTTAGTGGCGTTTTT
943844 TGTAAACGCC
Statistics
Matches: 146, Mismatches: 27, Indels: 16
0.77 0.14 0.08
Matches are distributed among these distances:
40 4 0.03
41 105 0.72
42 5 0.03
43 31 0.21
44 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (41 bp):
TTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTAC
Found at i:952123 original size:21 final size:21
Alignment explanation
Indices: 952097--952155 Score: 100
Period size: 21 Copynumber: 2.8 Consensus size: 21
952087 TAATTTATTA
952097 TTATGGATTTCAAGTTTCTTG
1 TTATGGATTTCAAGTTTCTTG
*
952118 TTATGGATTTAAAGTTTCTTG
1 TTATGGATTTCAAGTTTCTTG
*
952139 TTATGGATGTCAAGTTT
1 TTATGGATTTCAAGTTT
952156 ATTTGGGTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.22, C:0.07, G:0.20, T:0.51
Consensus pattern (21 bp):
TTATGGATTTCAAGTTTCTTG
Found at i:955697 original size:20 final size:20
Alignment explanation
Indices: 955647--955737 Score: 112
Period size: 20 Copynumber: 4.5 Consensus size: 20
955637 GCGATTTTCC
* *
955647 GACTATCGCAATGCGAATAT
1 GACTATCGCAATGCGATTCT
*
955667 GTA-AATCGCAATGCGATTCT
1 G-ACTATCGCAATGCGATTCT
*
955687 GACTATTGCAATGCGATTCT
1 GACTATCGCAATGCGATTCT
*
955707 GACTATCGCAACGCGATTCT
1 GACTATCGCAATGCGATTCT
*
955727 GACTGTCGCAA
1 GACTATCGCAA
955738 CACTGAATTT
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
19 1 0.02
20 59 0.97
21 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (20 bp):
GACTATCGCAATGCGATTCT
Found at i:956475 original size:42 final size:42
Alignment explanation
Indices: 956396--956487 Score: 105
Period size: 42 Copynumber: 2.2 Consensus size: 42
956386 CCTCTTCAAC
* * *
956396 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTTGAGG
1 GATGACAGAGGCCTCTTGAACGATGGGAGAGGACTCTTGAGG
* * **
956438 GATGATAGAGGCCTCTTGAACGATAGGG-GAGGCCTCTTGAAC
1 GATGACAGAGGCCTCTTGAACGAT-GGGAGAGGACTCTTGAGG
956480 GATGACAG
1 GATGACAG
956488 GTGAGTCGGG
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
42 38 0.93
43 3 0.07
ACGTcount: A:0.24, C:0.17, G:0.38, T:0.21
Consensus pattern (42 bp):
GATGACAGAGGCCTCTTGAACGATGGGAGAGGACTCTTGAGG
Found at i:956997 original size:18 final size:18
Alignment explanation
Indices: 956974--957040 Score: 89
Period size: 20 Copynumber: 3.5 Consensus size: 18
956964 GAAACTTAAA
*
956974 ATCGCAACACGAATGACT
1 ATCGCAACGCGAATGACT
956992 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCG--AATGACT
957012 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAA--TGACT
957032 ATCGCAACG
1 ATCGCAACG
957041 AGAGAATCGC
Statistics
Matches: 44, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
18 12 0.27
20 32 0.73
ACGTcount: A:0.36, C:0.27, G:0.19, T:0.18
Consensus pattern (18 bp):
ATCGCAACGCGAATGACT
Found at i:957010 original size:20 final size:20
Alignment explanation
Indices: 956985--957040 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
956975 TCGCAACACG
956985 AATGACTATCGCAACGCGAA
1 AATGACTATCGCAACGCGAA
957005 AATGACTATCGCAACGCGAA
1 AATGACTATCGCAACGCGAA
**
957025 TTTGACTATCGCAACG
1 AATGACTATCGCAACG
957041 AGAGAATCGC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.20
Consensus pattern (20 bp):
AATGACTATCGCAACGCGAA
Found at i:957108 original size:20 final size:20
Alignment explanation
Indices: 957083--957134 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
957073 GCGATTCTCT
957083 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
**
957103 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
957123 CGTTGCGATAGT
1 CGTTGCGATAGT
957135 AAACTATTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.19, C:0.19, G:0.27, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:957291 original size:18 final size:18
Alignment explanation
Indices: 957267--957316 Score: 84
Period size: 18 Copynumber: 2.8 Consensus size: 18
957257 TTTACTAAGC
957267 AATCTAAGTGAAATGG-T
1 AATCTAAGTGAAATGGTT
957284 ACATCTAAGTGAAATGGTT
1 A-ATCTAAGTGAAATGGTT
957303 AATCTAAGTGAAAT
1 AATCTAAGTGAAAT
957317 TACGAGTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
17 1 0.03
18 28 0.90
19 2 0.06
ACGTcount: A:0.42, C:0.08, G:0.20, T:0.30
Consensus pattern (18 bp):
AATCTAAGTGAAATGGTT
Found at i:959065 original size:20 final size:20
Alignment explanation
Indices: 959042--959109 Score: 84
Period size: 20 Copynumber: 3.5 Consensus size: 20
959032 TCTGAAACTT
959042 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
*
959062 AAAATTGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
** * *
959082 ACTATCGCAACGCGAAACT-
1 AAAATCGCAACACGAAAATG
959101 AAAATCGCA
1 AAAATCGCA
959110 TTTCGATTCT
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
19 7 0.17
20 33 0.82
ACGTcount: A:0.50, C:0.22, G:0.15, T:0.13
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:959521 original size:22 final size:22
Alignment explanation
Indices: 959494--959536 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
959484 GAGATAGACG
959494 GATTTCGTCGGAGATGGGGACT
1 GATTTCGTCGGAGATGGGGACT
*
959516 GATTTCGTTGGAGATGGGGAC
1 GATTTCGTCGGAGATGGGGAC
959537 GGATGTCGCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.19, C:0.12, G:0.42, T:0.28
Consensus pattern (22 bp):
GATTTCGTCGGAGATGGGGACT
Found at i:959741 original size:20 final size:19
Alignment explanation
Indices: 959710--959823 Score: 129
Period size: 20 Copynumber: 5.8 Consensus size: 19
959700 GGCGCTTTGA
*
959710 AAATCGCATTGCGATAGTC
1 AAATCGCGTTGCGATAGTC
*
959729 AGCATCGCGTTGCGATAGTC
1 A-AATCGCGTTGCGATAGTC
*
959749 AAATCTCGTTGCGATAGTC
1 AAATCGCGTTGCGATAGTC
*
959768 AGAATCGCGTTGCTATAGTC
1 A-AATCGCGTTGCGATAGTC
*
959788 ATACTCGCGTTGCGATAGTC
1 A-AATCGCGTTGCGATAGTC
* *
959808 ATACTCGCATTGCGAT
1 A-AATCGCGTTGCGAT
959824 TTACATATTT
Statistics
Matches: 83, Mismatches: 10, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
19 18 0.22
20 65 0.78
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.29
Consensus pattern (19 bp):
AAATCGCGTTGCGATAGTC
Found at i:959764 original size:39 final size:40
Alignment explanation
Indices: 959711--959823 Score: 147
Period size: 39 Copynumber: 2.9 Consensus size: 40
959701 GCGCTTTGAA
* *
959711 AATCGCATTGCGATAGTCAGCATCGCGTTGCGATAGTCA-
1 AATCGCGTTGCGATAGTCAGAATCGCGTTGCGATAGTCAT
* *
959750 AATCTCGTTGCGATAGTCAGAATCGCGTTGCTATAGTCAT
1 AATCGCGTTGCGATAGTCAGAATCGCGTTGCGATAGTCAT
* * * *
959790 ACTCGCGTTGCGATAGTCATACTCGCATTGCGAT
1 AATCGCGTTGCGATAGTCAGAATCGCGTTGCGAT
959824 TTACATATTT
Statistics
Matches: 63, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 35 0.56
40 28 0.44
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.29
Consensus pattern (40 bp):
AATCGCGTTGCGATAGTCAGAATCGCGTTGCGATAGTCAT
Found at i:959830 original size:20 final size:20
Alignment explanation
Indices: 959713--959847 Score: 116
Period size: 20 Copynumber: 6.8 Consensus size: 20
959703 GCTTTGAAAA
*
959713 TCGCATTGCGATAGTCA-GC
1 TCGCATTGCGATAGTCATAC
* *
959732 ATCGCGTTGCGATAGTCAAATC
1 -TCGCATTGCGATAGTCATA-C
* *
959754 TCG--TTGCGATAGTCAGAA
1 TCGCATTGCGATAGTCATAC
* *
959772 TCGCGTTGCTATAGTCATAC
1 TCGCATTGCGATAGTCATAC
*
959792 TCGCGTTGCGATAGTCATAC
1 TCGCATTGCGATAGTCATAC
* *
959812 TCGCATTGCGAT-TTACATAT
1 TCGCATTGCGATAGT-CATAC
*
959832 TTGCATTGCGATAGTC
1 TCGCATTGCGATAGTC
959848 GGAAAATCGC
Statistics
Matches: 96, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
18 3 0.03
19 14 0.15
20 74 0.77
21 4 0.04
22 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (20 bp):
TCGCATTGCGATAGTCATAC
Found at i:968019 original size:63 final size:65
Alignment explanation
Indices: 967891--968071 Score: 190
Period size: 63 Copynumber: 2.8 Consensus size: 65
967881 AAATATCTTC
*
967891 AATATTC-AAATTCAAACAGATAATAAATTTTAATTTGAAATATTCAAAAGATAAAACCACCTTT
1 AATATTCAAAATT-AAATAGATAATAAATTTTAATTTGAAATATTCAAAAGATAAAACCACCTTT
967955 T
65 T
* * * ** *
967956 ATTATTCAAAATTAAATAGAT-AT-AATTTTAATTTGAAATATTTAAAAGGATATAATTA-TTTT
1 AATATTCAAAATTAAATAGATAATAAATTTTAATTTGAAATATTCAAAA-GATAAAACCACCTTT
968018 T
65 T
* * *
968019 AATATTCAAATTTAAATAGGTAATAAATACCTTTTAATTTGACATATTCAAAA
1 AATATTCAAAATTAAATAGATAAT-AA-A--TTTTAATTTGAAATATTCAAAA
968072 TTATCCTATT
Statistics
Matches: 96, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
63 45 0.47
64 11 0.11
65 13 0.14
66 6 0.06
67 1 0.01
69 20 0.21
ACGTcount: A:0.48, C:0.08, G:0.06, T:0.39
Consensus pattern (65 bp):
AATATTCAAAATTAAATAGATAATAAATTTTAATTTGAAATATTCAAAAGATAAAACCACCTTTT
Found at i:969217 original size:12 final size:11
Alignment explanation
Indices: 969196--969225 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
969186 TTAATTTAAA
969196 TTTTGTGTAAT
1 TTTTGTGTAAT
969207 TTTTAGTGTAAT
1 TTTT-GTGTAAT
969219 TTTTGTG
1 TTTTGTG
969226 ATTAACTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.17, C:0.00, G:0.20, T:0.63
Consensus pattern (11 bp):
TTTTGTGTAAT
Found at i:969786 original size:327 final size:324
Alignment explanation
Indices: 969108--969804 Score: 836
Period size: 327 Copynumber: 2.1 Consensus size: 324
969098 TCTTAGTTAA
*
969108 TTTTTATT-TAAAATATAAATTAATTAGAT-TATTTATTTTGAATTTACATATTAAATGTATTCC
1 TTTTTATTGTAAAATATAAATTAATTAG-TCTATTTATTTTG-ATTTACAAATTAAATGTATTCC
* * *
969171 AGTGGCTTGGTAAGTTTAATTTAAATTTTGTGTAATTTTTAGTGTAATTTTTGTGATTAACTTAA
64 AGTGGCTTGGTAAGTTTAATTTAAATTTTGTGGAATTTTTAGTCTAATATTTGTGATTAACTTAA
* * *
969236 ATTATAATTGTTAGAATATTTATTTTAATTTTACATATTAAGTTGTATTTGAGTAAAACTTGGTG
129 ATTATAATTATTAGAATATTTATTATAATTTTACATATTAAGTTGTATTTGAGT-AAACTTGGTA
* *
969301 AGTGTAGTTTAAATTATCACATTAATTTTTTTAGTAATATAAATTATTAGACTAATTATTTTTAT
193 AGTGTAGTTTAAAATATCACATTAATTTTTTTAGTAATATAAATTATTAGACTAATTATCTTTAT
* *
969366 TTTGCATATTAAATCGTATTTGAGTACCTTGTTAAGTTTAGTTTAAAATTTATTGTTTTATTTTG
258 TTTACATATTAAATCGTATTTGAGTACCTTGGTAAGTTTAGTTTAAAATTTATTGTTTTATTTTG
*
969431 TT
323 TG
* * *
969433 TTTTTATTGTGAAA-ATAAATTAATTAGTCTATTTGTTTTGATTTCACAAATTAAAATGTATTCG
1 TTTTTATTGTAAAATATAAATTAATTAGTCTATTTATTTTGATTT-ACAAATT-AAATGTATTCC
* * ** *
969497 AGTGGTTTGGTAAG-TTAATTTAAAATTTTCGTGGAGTTTTTAGTCTAATATTTGTTTTTAATTT
64 AGTGGCTTGGTAAGTTTAATTT-AAATTTT-GTGGAATTTTTAGTCTAATATTTGTGATTAACTT
* * * ***
969561 AAATTTTAATTATTAGACTATTTATTATGATTTTACATATTAAGTTGTATTTGAGT-TGTTTGGT
127 AAATTATAATTATTAGAATATTTATTATAATTTTACATATTAAGTTGTATTTGAGTAAACTTGGT
* * **** ** * *
969625 AAGTTTAGTTTAAAATGTTTTTTTGTTTTTTTATTGAGTAATATAAATTATT-GAAGTATTTATC
192 AAGTGTAGTTTAAAATATCACATT-AATTTTT-TT-AGTAATATAAATTATTAG-ACTAATTATC
** * * * *
969689 TTTATTTTACATATTAAATCGTATTTGAGTAGTTTGGTAAGTTTATTTTAAATTTTTTTGTTTTG
253 TTTATTTTACATATTAAATCGTATTTGAGTACCTTGGTAAGTTTAGTTTAAAATTTATTGTTTTA
969754 TTTT-TG
318 TTTTGTG
*
969760 TTTTTATTGT-AAATATACAA-TAATTAGACTATTTATTTTGATTTA
1 TTTTTATTGTAAAATATA-AATTAATTAGTCTATTTATTTTGATTTA
969805 ACATATTTTT
Statistics
Matches: 316, Mismatches: 44, Indels: 23
0.83 0.11 0.06
Matches are distributed among these distances:
324 5 0.02
325 65 0.21
326 43 0.14
327 117 0.37
328 86 0.27
ACGTcount: A:0.31, C:0.04, G:0.12, T:0.53
Consensus pattern (324 bp):
TTTTTATTGTAAAATATAAATTAATTAGTCTATTTATTTTGATTTACAAATTAAATGTATTCCAG
TGGCTTGGTAAGTTTAATTTAAATTTTGTGGAATTTTTAGTCTAATATTTGTGATTAACTTAAAT
TATAATTATTAGAATATTTATTATAATTTTACATATTAAGTTGTATTTGAGTAAACTTGGTAAGT
GTAGTTTAAAATATCACATTAATTTTTTTAGTAATATAAATTATTAGACTAATTATCTTTATTTT
ACATATTAAATCGTATTTGAGTACCTTGGTAAGTTTAGTTTAAAATTTATTGTTTTATTTTGTG
Found at i:972009 original size:59 final size:60
Alignment explanation
Indices: 971749--972032 Score: 446
Period size: 60 Copynumber: 4.8 Consensus size: 60
971739 AACTGCTCTA
* *
971749 AGATGAAAAGTTAAATGCCTAATGGTGCATTTTGGCAGAAAGGTGCCATTACTGCACGTT
1 AGATGAAAAGTTAAATGCCTAACGGTGCATTTTGGCAGAAAGGTGCCATTAATGCACGTT
* ** *
971809 AGATGAAAAGTTAAATGTCTAACTATGCATTTTGGCAGAAAGGTGCCATTAATGCAAGTT
1 AGATGAAAAGTTAAATGCCTAACGGTGCATTTTGGCAGAAAGGTGCCATTAATGCACGTT
* *
971869 AGATGAAGAGTTAAATGCCTAACGGTGCATTTTGGCAAAAATGG-GCCATTAATGCACGTT
1 AGATGAAAAGTTAAATGCCTAACGGTGCATTTTGGCAGAAA-GGTGCCATTAATGCACGTT
* *
971929 AGATGAAAAGTTAAATTCCTAACGGTGCATTTTGGCAGAAAGGAGCCATT-ATGCACGTT
1 AGATGAAAAGTTAAATGCCTAACGGTGCATTTTGGCAGAAAGGTGCCATTAATGCACGTT
*
971988 AGATGAAAAGTTAAATGCCTAACTGTGCATTTTGGCAGAAAGGTG
1 AGATGAAAAGTTAAATGCCTAACGGTGCATTTTGGCAGAAAGGTG
972033 TAACATTCTC
Statistics
Matches: 204, Mismatches: 18, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
59 53 0.26
60 149 0.73
61 2 0.01
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (60 bp):
AGATGAAAAGTTAAATGCCTAACGGTGCATTTTGGCAGAAAGGTGCCATTAATGCACGTT
Found at i:972839 original size:62 final size:63
Alignment explanation
Indices: 972769--972904 Score: 161
Period size: 63 Copynumber: 2.2 Consensus size: 63
972759 CCATTCAACA
* * *
972769 TGTATCGATACCCTCTTGAAA-AAAAA-TCATCGAATATAA-TAAGTGTATCGATACACAGGTAG
1 TGTATCGATACCCCCTTGAAACAAAAACT-ATCAAATATAATTAA-TGTATCGATACACAGGCAG
* * * * *
972831 TGTATCGATACCCCCTTGAAACGAAAACTTTCAAATGTAATTTATGTATCGATACATAGGCAG
1 TGTATCGATACCCCCTTGAAACAAAAACTATCAAATATAATTAATGTATCGATACACAGGCAG
972894 TGTATCGATAC
1 TGTATCGATAC
972905 ATCAGATAAA
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
62 20 0.32
63 40 0.63
64 3 0.05
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (63 bp):
TGTATCGATACCCCCTTGAAACAAAAACTATCAAATATAATTAATGTATCGATACACAGGCAG
Found at i:974268 original size:60 final size:60
Alignment explanation
Indices: 974175--974389 Score: 288
Period size: 60 Copynumber: 3.6 Consensus size: 60
974165 GGGTGTTACA
* * *
974175 AAAGGTGTCAATAATGCAAGTTAGATGAAAAGTTAAATGTCTAACAGTGCATTTTGGCAG
1 AAAGGTGCCATTAATGCAAGTTAGATGAAAAGTTAAATGCCTAACAGTGCATTTTGGCAG
* * * *
974235 AAAGGTGCCATTACTGCACGTTAGATGAAAAGTTAAATGCCTAA-ATGTGTATTTTGGTAG
1 AAAGGTGCCATTAATGCAAGTTAGATGAAAAGTTAAATGCCTAACA-GTGCATTTTGGCAG
** *
974295 AAATATGCCATTAATGCAAGTTAGATGAAAAGTTAAATGCCTAACGGTGCATTTTGGCAG
1 AAAGGTGCCATTAATGCAAGTTAGATGAAAAGTTAAATGCCTAACAGTGCATTTTGGCAG
* * * *
974355 AAATGTACCATTACTGCACGTTAGATGAAAAGTTA
1 AAAGGTGCCATTAATGCAAGTTAGATGAAAAGTTA
974390 GAATAGTGCA
Statistics
Matches: 135, Mismatches: 18, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
59 1 0.01
60 134 0.99
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (60 bp):
AAAGGTGCCATTAATGCAAGTTAGATGAAAAGTTAAATGCCTAACAGTGCATTTTGGCAG
Found at i:980371 original size:18 final size:18
Alignment explanation
Indices: 980348--980385 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
980338 AGGTCATGGT
980348 ATCGGTACTAGAAGAACA
1 ATCGGTACTAGAAGAACA
980366 ATCGGTACTAGAAGAACA
1 ATCGGTACTAGAAGAACA
980384 AT
1 AT
980386 ACCGATACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.45, C:0.16, G:0.21, T:0.18
Consensus pattern (18 bp):
ATCGGTACTAGAAGAACA
Found at i:981058 original size:60 final size:60
Alignment explanation
Indices: 980985--981241 Score: 311
Period size: 60 Copynumber: 4.3 Consensus size: 60
980975 AATTGCTCTA
* * *
980985 AGATGAAAAGTTAAATGCTTAATTGTGCATTTTGGAAGAAATGTGTCATTAATGCAAGTT
1 AGATGAAAAGTTAAATGCCTAACTGTGCATTTTGGAAGAAAGGTGTCATTAATGCAAGTT
* ** * * *
981045 AGATGAAAAGTTAAATGCCTAACAGTGCATTTT-GACAGAAAGGTACCATTAATACACGCT
1 AGATGAAAAGTTAAATGCCTAACTGTGCATTTTGGA-AGAAAGGTGTCATTAATGCAAGTT
* * ** *
981105 AGATGAAAAGTTAAATGTCTAACTGTGCATTTTGGCATTAAGATGTCATTAATGCAAGTT
1 AGATGAAAAGTTAAATGCCTAACTGTGCATTTTGGAAGAAAGGTGTCATTAATGCAAGTT
* * * * *
981165 AGATGAAAACTTAAATGCCTAA-TGGTTCATTTTGGCAGAAAGGTGTCATTATTGCACGTT
1 AGATGAAAAGTTAAATGCCTAACT-GTGCATTTTGGAAGAAAGGTGTCATTAATGCAAGTT
981225 AGATGAAAAGTTAAATG
1 AGATGAAAAGTTAAATG
981242 TAACACTCTC
Statistics
Matches: 165, Mismatches: 29, Indels: 6
0.82 0.14 0.03
Matches are distributed among these distances:
59 3 0.02
60 161 0.98
61 1 0.01
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.32
Consensus pattern (60 bp):
AGATGAAAAGTTAAATGCCTAACTGTGCATTTTGGAAGAAAGGTGTCATTAATGCAAGTT
Found at i:981198 original size:120 final size:121
Alignment explanation
Indices: 980985--981242 Score: 360
Period size: 120 Copynumber: 2.1 Consensus size: 121
980975 AATTGCTCTA
*
980985 AGATGAAAAGTTAAATG-CTTAATTGTGCATTTTGGAAGAAATGTGTCATTAATGCAAGTTAGAT
1 AGATGAAAAGTTAAATGTCTTAACTGTGCATTTTGGAAGAAATGTGTCATTAATGCAAGTTAGAT
*
981049 GAAAAGTTAAATGCCTAACAGTGCATTTTGACAGAAAGGTACCATTAATACACGCT
66 GAAAACTTAAATGCCTAACAGTGCATTTTGACAGAAAGGTACCATTAATACACGCT
* **
981105 AGATGAAAAGTTAAATGTC-TAACTGTGCATTTTGGCATTAA-GATGTCATTAATGCAAGTTAGA
1 AGATGAAAAGTTAAATGTCTTAACTGTGCATTTTGGAAGAAATG-TGTCATTAATGCAAGTTAGA
** * * ** * * *
981168 TGAAAACTTAAATGCCTAATGGTTCATTTTGGCAGAAAGGTGTCATTATTGCACGTT
65 TGAAAACTTAAATGCCTAACAGTGCATTTTGACAGAAAGGTACCATTAATACACGCT
981225 AGATGAAAAGTTAAATGT
1 AGATGAAAAGTTAAATGT
981243 AACACTCTCA
Statistics
Matches: 122, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
119 1 0.01
120 120 0.98
121 1 0.01
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.32
Consensus pattern (121 bp):
AGATGAAAAGTTAAATGTCTTAACTGTGCATTTTGGAAGAAATGTGTCATTAATGCAAGTTAGAT
GAAAACTTAAATGCCTAACAGTGCATTTTGACAGAAAGGTACCATTAATACACGCT
Found at i:981870 original size:27 final size:27
Alignment explanation
Indices: 981832--981902 Score: 124
Period size: 27 Copynumber: 2.6 Consensus size: 27
981822 GGGCTATGAA
*
981832 ATTTATCCCAAAGGACCTATGTATTGT
1 ATTTGTCCCAAAGGACCTATGTATTGT
981859 ATTTGTCCCAAAGGACCTATGTATTGT
1 ATTTGTCCCAAAGGACCTATGTATTGT
*
981886 ATTTGTCCCAAAAGACC
1 ATTTGTCCCAAAGGACC
981903 ACTCCTTAAG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (27 bp):
ATTTGTCCCAAAGGACCTATGTATTGT
Found at i:983568 original size:60 final size:60
Alignment explanation
Indices: 983467--983711 Score: 321
Period size: 60 Copynumber: 4.1 Consensus size: 60
983457 GGATGTTACA
* ** * *
983467 TTAAATGCCTAGCTATGCATTTTGGCAGAAATGTGCCATTAATGCAAGTTAGATCAAAAG
1 TTAAATGCCTAACGGTGCATTTTGGCAGAAAGGTGCCATTAATGCAAGTTAGATGAAAAG
* * **
983527 TTAAATGCATAACGGTGTATTTTGGCAGAAAGGTGTTATTAATGCAAGTTAGATGAAAAG
1 TTAAATGCCTAACGGTGCATTTTGGCAGAAAGGTGCCATTAATGCAAGTTAGATGAAAAG
* * * *
983587 TTAAATGCCTAACGGTGCATTTTGAG-AGAAAGGGGTCATTACTGCACGTTAGATGAAAAG
1 TTAAATGCCTAACGGTGCATTTTG-GCAGAAAGGTGCCATTAATGCAAGTTAGATGAAAAG
* * * *
983647 TTAAATGCCTAACGGTGCATTTTGGCAAAAATGTGCCACTAATTCAAGTTAGATGAAAAG
1 TTAAATGCCTAACGGTGCATTTTGGCAGAAAGGTGCCATTAATGCAAGTTAGATGAAAAG
983707 TTAAA
1 TTAAA
983712 ACAATGTATT
Statistics
Matches: 160, Mismatches: 23, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
59 1 0.01
60 158 0.99
61 1 0.01
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.29
Consensus pattern (60 bp):
TTAAATGCCTAACGGTGCATTTTGGCAGAAAGGTGCCATTAATGCAAGTTAGATGAAAAG
Found at i:985867 original size:27 final size:27
Alignment explanation
Indices: 985826--985931 Score: 97
Period size: 27 Copynumber: 3.9 Consensus size: 27
985816 GCGTCAACAA
* *
985826 ATATTCATCATATTAATTCAAATATTG
1 ATATTAATCACATTAATTCAAATATTG
* * *
985853 TTATTAATCGCATTAATTCAACTATTG
1 ATATTAATCACATTAATTCAAATATTG
* * *
985880 ATA-AAATTCACATTCATTCAAATATTA
1 ATATTAA-TCACATTAATTCAAATATTG
* * *
985907 ATATTAATAACATTCATTAAAATAT
1 ATATTAATCACATTAATTCAAATAT
985932 AGGGTCAACA
Statistics
Matches: 63, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
26 2 0.03
27 59 0.94
28 2 0.03
ACGTcount: A:0.43, C:0.12, G:0.03, T:0.42
Consensus pattern (27 bp):
ATATTAATCACATTAATTCAAATATTG
Found at i:988760 original size:38 final size:38
Alignment explanation
Indices: 988718--988796 Score: 88
Period size: 38 Copynumber: 2.1 Consensus size: 38
988708 AATTATAATT
988718 AATATTATTAAATTTATAATAAAAT-AAAAAATATTAAC
1 AATATTATTAAATTTATAAT-AAATGAAAAAATATTAAC
* * * * * *
988756 AATATTTTTTATTTTATTATAAATGTAAATATATTAAC
1 AATATTATTAAATTTATAATAAATGAAAAAATATTAAC
988794 AAT
1 AAT
988797 TTTTTTTATA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
37 4 0.12
38 30 0.88
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (38 bp):
AATATTATTAAATTTATAATAAATGAAAAAATATTAAC
Found at i:988973 original size:38 final size:38
Alignment explanation
Indices: 988931--989016 Score: 127
Period size: 38 Copynumber: 2.3 Consensus size: 38
988921 TTTCCCGTGC
*
988931 AACCACCAACCTACCTGAGATATTAATAGAAAATTAAT
1 AACCACCAACCTACCCGAGATATTAATAGAAAATTAAT
* * * *
988969 AACCACCAACCTACCCGAGTTATTAATGGATAATTATT
1 AACCACCAACCTACCCGAGATATTAATAGAAAATTAAT
989007 AACCACCAAC
1 AACCACCAAC
989017 TTATTGATAT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.43, C:0.26, G:0.08, T:0.23
Consensus pattern (38 bp):
AACCACCAACCTACCCGAGATATTAATAGAAAATTAAT
Found at i:989239 original size:38 final size:38
Alignment explanation
Indices: 989188--989263 Score: 109
Period size: 38 Copynumber: 2.0 Consensus size: 38
989178 TTCAACCACC
* * *
989188 AACCACTAACCTA-CTCAGGTTATTAATGGATAATTAAT
1 AACCACCAACCTACCT-AGATTATTAATAGATAATTAAT
989226 AACCACCAACCTACCTAGATTATTAATAGATAATTAAT
1 AACCACCAACCTACCTAGATTATTAATAGATAATTAAT
989264 TATTGGTGCC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
38 32 0.94
39 2 0.06
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (38 bp):
AACCACCAACCTACCTAGATTATTAATAGATAATTAAT
Found at i:989302 original size:25 final size:25
Alignment explanation
Indices: 989274--989333 Score: 93
Period size: 25 Copynumber: 2.4 Consensus size: 25
989264 TATTGGTGCC
** *
989274 ATTATTTTTTGTCATTATAATTAAT
1 ATTATTTTTCCTCATTATAATAAAT
989299 ATTATTTTTCCTCATTATAATAAAT
1 ATTATTTTTCCTCATTATAATAAAT
989324 ATTATTTTTC
1 ATTATTTTTC
989334 TACTACAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.32, C:0.08, G:0.02, T:0.58
Consensus pattern (25 bp):
ATTATTTTTCCTCATTATAATAAAT
Found at i:990025 original size:7 final size:7
Alignment explanation
Indices: 990013--990039 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
990003 ATTTTTCGTT
990013 CAACCAC
1 CAACCAC
990020 CAACCAC
1 CAACCAC
990027 CAACCAC
1 CAACCAC
990034 CAACCA
1 CAACCA
990040 ACCTGATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.56, G:0.00, T:0.00
Consensus pattern (7 bp):
CAACCAC
Found at i:1009369 original size:36 final size:35
Alignment explanation
Indices: 1009329--1009396 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
1009319 AGAACTATGA
*
1009329 TTCCTAGCAAACACAATTGACTGCCATGGATTATAG
1 TTCCTAGCAAACACAA-TGACTGCCATAGATTATAG
***
1009365 TTCCTAGCATTGACAATGACTGCCATAGATTA
1 TTCCTAGCAAACACAATGACTGCCATAGATTA
1009397 CATTGAACTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
35 15 0.54
36 13 0.46
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.29
Consensus pattern (35 bp):
TTCCTAGCAAACACAATGACTGCCATAGATTATAG
Found at i:1022998 original size:10 final size:10
Alignment explanation
Indices: 1022978--1023012 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
1022968 TAAACGAAAA
1022978 CTTCAACGTGT
1 CTTC-ACGTGT
1022989 CTTCACGTGT
1 CTTCACGTGT
*
1022999 CTTCATGTGT
1 CTTCACGTGT
1023009 CTTC
1 CTTC
1023013 TTCGACAAGC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 19 0.83
11 4 0.17
ACGTcount: A:0.11, C:0.29, G:0.17, T:0.43
Consensus pattern (10 bp):
CTTCACGTGT
Found at i:1023560 original size:97 final size:97
Alignment explanation
Indices: 1023394--1023685 Score: 469
Period size: 97 Copynumber: 3.0 Consensus size: 97
1023384 GTTTCAGCAT
*
1023394 GGTTCTGTCTAAAACTAGAGGGGTCTTTAATGGCAAACCTCTGGTAACTTCACCCCATCTATTAA
1 GGTTCTGTCTAAAACTGGAGGGGTCTTTAATGGCAAACCTCTGGTAACTTCACCCCATCTATTAA
* *
1023459 CAAATTCCACGACAGTAATCCCATCTAATATA
66 CAAATTCCATGACAGTAATCCCATCTAACATA
*
1023491 GGTTCTGTCTAAAACTGGAGGGGTCTTTAATGGCAAGCCTCTGGTAACTTCACCCCATCTATTAA
1 GGTTCTGTCTAAAACTGGAGGGGTCTTTAATGGCAAACCTCTGGTAACTTCACCCCATCTATTAA
* *
1023556 CAAATTTCATTG-CATTAATCCCATCTAACATA
66 CAAATTCCA-TGACAGTAATCCCATCTAACATA
* * * *
1023588 GGTTCTGTCTAAAACTGGAGGGGTCTTTAATGGCAAACCTCTGGTAGCTTCATCCTAACTATTAA
1 GGTTCTGTCTAAAACTGGAGGGGTCTTTAATGGCAAACCTCTGGTAACTTCACCCCATCTATTAA
*
1023653 CAAATTCCATGACGGTAATCCCATCTAACATA
66 CAAATTCCATGACAGTAATCCCATCTAACATA
1023685 G
1 G
1023686 AGTGGTTCAT
Statistics
Matches: 179, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
96 2 0.01
97 176 0.98
98 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (97 bp):
GGTTCTGTCTAAAACTGGAGGGGTCTTTAATGGCAAACCTCTGGTAACTTCACCCCATCTATTAA
CAAATTCCATGACAGTAATCCCATCTAACATA
Found at i:1026253 original size:3 final size:3
Alignment explanation
Indices: 1026245--1026287 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
1026235 ATATTCAAAG
1026245 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1026288 TGTGTAGCAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:1026748 original size:17 final size:17
Alignment explanation
Indices: 1026729--1026762 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
1026719 AGTATGATGA
1026729 TTTAATTATTATTTTTAT
1 TTTAATTA-TATTTTTAT
*
1026747 TTTGATTATATTTTTA
1 TTTAATTATATTTTTA
1026763 AAATTTTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (17 bp):
TTTAATTATATTTTTAT
Found at i:1029981 original size:14 final size:14
Alignment explanation
Indices: 1029962--1030002 Score: 82
Period size: 14 Copynumber: 2.9 Consensus size: 14
1029952 TCATTTGACT
1029962 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
1029976 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
1029990 ATCGCAACGCGAA
1 ATCGCAACGCGAA
1030003 TATGACTATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.41, C:0.29, G:0.22, T:0.07
Consensus pattern (14 bp):
ATCGCAACGCGAAA
Found at i:1030015 original size:20 final size:20
Alignment explanation
Indices: 1029990--1030078 Score: 99
Period size: 20 Copynumber: 4.5 Consensus size: 20
1029980 CAACGCGAAA
1029990 ATCGCAACGC-GAATATGACT
1 ATCGCAACGCGGAA-ATGACT
**
1030010 ATCGCAACATGGAAATGACT
1 ATCGCAACGCGGAAATGACT
* * *
1030030 ATCGCAATGCGGAATTAACT
1 ATCGCAACGCGGAAATGACT
*
1030050 ATCGTAACGCGGAAATGACT
1 ATCGCAACGCGGAAATGACT
*
1030070 ATCACAACG
1 ATCGCAACG
1030079 AGAGAATCGC
Statistics
Matches: 55, Mismatches: 13, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
20 52 0.95
21 3 0.05
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.20
Consensus pattern (20 bp):
ATCGCAACGCGGAAATGACT
Found at i:1030107 original size:19 final size:19
Alignment explanation
Indices: 1030083--1030170 Score: 96
Period size: 19 Copynumber: 4.8 Consensus size: 19
1030073 ACAACGAGAG
*
1030083 AATCGCAATGCGAAATGAA
1 AATCGCAACGCGAAATGAA
1030102 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
* *
1030121 AATCGTAA--CG-AGTG--
1 AATCGCAACGCGAAATGAA
*
1030135 AATCGCAATGCGAAAATGAA
1 AATCGCAACGCG-AAATGAA
1030155 AATCGCAACGCGAAAT
1 AATCGCAACGCGAAAT
1030171 TAGTTTCTTG
Statistics
Matches: 57, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
14 7 0.12
16 5 0.09
17 2 0.04
18 3 0.05
19 29 0.51
20 11 0.19
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.15
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:1030131 original size:52 final size:52
Alignment explanation
Indices: 1030030--1030170 Score: 174
Period size: 53 Copynumber: 2.7 Consensus size: 52
1030020 GGAAATGACT
* * * * **
1030030 ATCGCAATGCGGAATTAACTATCGTAACGCGGAAATGACTATCACAACGAGAGA
1 ATCGCAATGCGAAATGAA-AATCGCAACGC-GAAATGAAAATCACAACGAGAGA
** *
1030084 ATCGCAATGCGAAATGAAAATCGCAACGCGAAATGAAAATCGTAACGAGTGA
1 ATCGCAATGCGAAATGAAAATCGCAACGCGAAATGAAAATCACAACGAGAGA
1030136 ATCGCAATGCGAAAATGAAAATCGCAACGCGAAAT
1 ATCGCAATGCG-AAATGAAAATCGCAACGCGAAAT
1030171 TAGTTTCTTG
Statistics
Matches: 77, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
52 29 0.38
53 32 0.42
54 16 0.21
ACGTcount: A:0.43, C:0.19, G:0.22, T:0.16
Consensus pattern (52 bp):
ATCGCAATGCGAAATGAAAATCGCAACGCGAAATGAAAATCACAACGAGAGA
Found at i:1030236 original size:33 final size:33
Alignment explanation
Indices: 1030180--1030274 Score: 118
Period size: 33 Copynumber: 2.8 Consensus size: 33
1030170 TTAGTTTCTT
1030180 GTTGCGATTTTCATTTTCGCATTGCGATTCACTC
1 GTTGCGATTTTCA-TTTCGCATTGCGATTCACTC
* **
1030214 GTTGTGATTTTCATTTCGCATTGCGATTGTCTC
1 GTTGCGATTTTCATTTCGCATTGCGATTCACTC
** *
1030247 GTTGCGATAGTCATTTCCGCGTTGCGAT
1 GTTGCGATTTTCATTT-CGCATTGCGAT
1030275 AGTCTGTTTT
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
33 31 0.58
34 22 0.42
ACGTcount: A:0.14, C:0.21, G:0.22, T:0.43
Consensus pattern (33 bp):
GTTGCGATTTTCATTTCGCATTGCGATTCACTC
Found at i:1030395 original size:14 final size:14
Alignment explanation
Indices: 1030376--1030412 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
1030366 CATCAATTAA
1030376 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
1030390 ACAAATCATCTTTT
1 ACAAATCAACATTT
1030404 ACAAATCAA
1 ACAAATCAA
1030413 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:1031840 original size:21 final size:21
Alignment explanation
Indices: 1031792--1031849 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
1031782 TGATGACAGT
* *
1031792 GGCCTCTTGAACGGTGGGAGG
1 GGCCTCTTGAACGATGGGAGA
*
1031813 GGACTCTTGAACGATAGGG-GA
1 GGCCTCTTGAACGAT-GGGAGA
1031834 GGCCTCTTGAACGATG
1 GGCCTCTTGAACGATG
1031850 ACAGGTGAGT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 1 0.03
21 28 0.88
22 3 0.09
ACGTcount: A:0.21, C:0.19, G:0.40, T:0.21
Consensus pattern (21 bp):
GGCCTCTTGAACGATGGGAGA
Found at i:1032354 original size:20 final size:20
Alignment explanation
Indices: 1032331--1032379 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
1032321 GAAACTTAAA
1032331 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* **
1032351 ATCGCAATGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
1032371 ATCGCAACG
1 ATCGCAACG
1032380 AGAGAATCAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.20
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:1032434 original size:19 final size:20
Alignment explanation
Indices: 1032412--1032494 Score: 64
Period size: 19 Copynumber: 4.2 Consensus size: 20
1032402 AAATCGCAAC
1032412 GCGATTAT-AGTTTCGCGTT
1 GCGATTATAAGTTTCGCGTT
**
1032431 GCGATT-TTGGTTTCGCGTT
1 GCGATTATAAGTTTCGCGTT
** *
1032450 GCGA-TAGTCATTTTTCACGTT
1 GCGATTA-T-AAGTTTCGCGTT
* *
1032471 GCGATTTTAAGTTTCGTGTT
1 GCGATTATAAGTTTCGCGTT
1032491 GCGA
1 GCGA
1032495 AAGTAAACTA
Statistics
Matches: 49, Mismatches: 10, Indels: 9
0.72 0.15 0.13
Matches are distributed among these distances:
18 2 0.04
19 20 0.41
20 13 0.27
21 13 0.27
22 1 0.02
ACGTcount: A:0.14, C:0.16, G:0.27, T:0.43
Consensus pattern (20 bp):
GCGATTATAAGTTTCGCGTT
Found at i:1032707 original size:94 final size:94
Alignment explanation
Indices: 1032542--1032921 Score: 602
Period size: 94 Copynumber: 4.1 Consensus size: 94
1032532 ATGGATTGCA
* *
1032542 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCAGAGTATTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
* * *
1032606 TTAGCAGAATTAGTAGCAACCAAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
*
1032635 TTACTTTCAACCAAAAGACAAAACAAAGATAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
1032700 TTAGCAGAATTGGCAGCAATCGAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
* *
1032729 TTACTTTCAACTAAAAGTCAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
** *
1032794 TTAGCAGAATTGATAGCAACCGAATAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
*
1032823 TTAC-TTCAACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTTAAAGAATAAACAG
1 TTACTTTCAACCAAAAGACAAAAC-AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAG
* *
1032887 TTTAGCAGTATTGGCAGCAACCGAATAAAT
65 TTTAGCAGAATTGGCAGCAACCGAACAAAT
1032917 TTACT
1 TTACT
1032922 AAGCAATCTA
Statistics
Matches: 264, Mismatches: 20, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
93 21 0.08
94 243 0.92
ACGTcount: A:0.48, C:0.18, G:0.12, T:0.23
Consensus pattern (94 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
TTAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:1034437 original size:20 final size:20
Alignment explanation
Indices: 1034412--1034467 Score: 80
Period size: 20 Copynumber: 2.8 Consensus size: 20
1034402 TGAAATAAAA
1034412 ATCGCAACGAGAGAATGACT
1 ATCGCAACGAGAGAATGACT
1034432 ATCGCAATGCG-GA-AATGACT
1 ATCGCAA--CGAGAGAATGACT
1034452 ATCGCAACGAGAGAAT
1 ATCGCAACGAGAGAAT
1034468 CGCAACGCGA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
18 2 0.06
19 2 0.06
20 24 0.75
21 2 0.06
22 2 0.06
ACGTcount: A:0.39, C:0.20, G:0.25, T:0.16
Consensus pattern (20 bp):
ATCGCAACGAGAGAATGACT
Found at i:1034578 original size:21 final size:21
Alignment explanation
Indices: 1034552--1034593 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
1034542 GTTGCGATAG
*
1034552 TCATTTTCGTGTTGCGATTTT
1 TCATTTTCATGTTGCGATTTT
1034573 TCATTTTCATGTTGCGATTTT
1 TCATTTTCATGTTGCGATTTT
1034594 AAGTTTAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.12, C:0.14, G:0.17, T:0.57
Consensus pattern (21 bp):
TCATTTTCATGTTGCGATTTT
Found at i:1035164 original size:20 final size:20
Alignment explanation
Indices: 1035139--1035331 Score: 165
Period size: 20 Copynumber: 9.6 Consensus size: 20
1035129 CTTTAAAAAT
1035139 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
1035159 CGCGTTGCGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
* *
1035179 TGTCGTTGCGATTTACAGATA
1 CG-CGTTGCGATTTACGGATA
* * * *
1035200 CGCATTACGATTTACGTATT
1 CGCGTTGCGATTTACGGATA
* **
1035220 CTCGTTGCGATTTATAGATA
1 CGCGTTGCGATTTACGGATA
* * *
1035240 CGCATTGCGATTTACGTATT
1 CGCGTTGCGATTTACGGATA
*
1035260 CTCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* * *
1035280 CGCATTGTGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
*
1035300 TGTCGTTGCGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
*
1035321 CTCGTTGCGAT
1 CGCGTTGCGAT
1035332 AGTCAGAATC
Statistics
Matches: 130, Mismatches: 37, Indels: 12
0.73 0.21 0.07
Matches are distributed among these distances:
20 99 0.76
21 31 0.24
ACGTcount: A:0.20, C:0.18, G:0.23, T:0.38
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:1035225 original size:40 final size:41
Alignment explanation
Indices: 1035141--1035331 Score: 278
Period size: 40 Copynumber: 4.7 Consensus size: 41
1035131 TTAAAAATCG
* *
1035141 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGT
1 CGTTGCGATTTACGGATACGCATTGCGATTTTACGTATTCT
* *
1035182 CGTTGCGATTTACAGATACGCATTACGA-TTTACGTATTCT
1 CGTTGCGATTTACGGATACGCATTGCGATTTTACGTATTCT
**
1035222 CGTTGCGATTTATAGATACGCATTGCGA-TTTACGTATTCT
1 CGTTGCGATTTACGGATACGCATTGCGATTTTACGTATTCT
* *
1035262 CGTTGCGATTTACGGATACGCATTGTGATTTTACGTATTGT
1 CGTTGCGATTTACGGATACGCATTGCGATTTTACGTATTCT
* *
1035303 CGTTGCGATTTACGGATACTCGTTGCGAT
1 CGTTGCGATTTACGGATACGCATTGCGAT
1035332 AGTCAGAATC
Statistics
Matches: 136, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
40 74 0.54
41 62 0.46
ACGTcount: A:0.20, C:0.18, G:0.23, T:0.39
Consensus pattern (41 bp):
CGTTGCGATTTACGGATACGCATTGCGATTTTACGTATTCT
Found at i:1035355 original size:121 final size:121
Alignment explanation
Indices: 1035141--1035373 Score: 319
Period size: 121 Copynumber: 1.9 Consensus size: 121
1035131 TTAAAAATCG
*
1035141 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGTCGTTGCGATTTACAGATACGCATT
1 CGTTGCGATTTACGGATACGCATTGCGATTTTACGTATTGTCGTTGCGATTTACAGATACGCATT
* * *
1035206 ACGATTTACGTATTCTCGTTGCGATTTATA-GATACGCATTGCGATTTACGTATTCT
66 ACGATTCACGTAATCGCGTTGCGATTTATATG-TACGCATTGCGATTTACGTATTCT
* * * *
1035262 CGTTGCGATTTACGGATACGCATTGTGATTTTACGTATTGTCGTTGCGATTTACGGATACTCGTT
1 CGTTGCGATTTACGGATACGCATTGCGATTTTACGTATTGTCGTTGCGATTTACAGATACGCATT
* * *
1035327 GCGATAGTCA-G-AATCGCGTTGCGATTTATATGTTCGCGTTGCGATTT
66 ACGAT--TCACGTAATCGCGTTGCGATTTATATGTACGCATTGCGATTT
1035374 TGGAAAATCG
Statistics
Matches: 98, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
121 94 0.96
122 2 0.02
123 2 0.02
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.39
Consensus pattern (121 bp):
CGTTGCGATTTACGGATACGCATTGCGATTTTACGTATTGTCGTTGCGATTTACAGATACGCATT
ACGATTCACGTAATCGCGTTGCGATTTATATGTACGCATTGCGATTTACGTATTCT
Found at i:1035390 original size:21 final size:21
Alignment explanation
Indices: 1035366--1035414 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
1035356 ATGTTCGCGT
1035366 TGCGATTTTGGAAAATCGCAA
1 TGCGATTTTGGAAAATCGCAA
* * ** *
1035387 TGCGAATTTGTACTATCGCAT
1 TGCGATTTTGGAAAATCGCAA
1035408 TGCGATT
1 TGCGATT
1035415 CTGGGAACTG
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (21 bp):
TGCGATTTTGGAAAATCGCAA
Found at i:1035591 original size:6 final size:6
Alignment explanation
Indices: 1035580--1035622 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
1035570 TATACTATAA
* *
1035580 TAATAT TAATAT TAATAT TATTAT T-ATAA TAATAT ATAATAT T
1 TAATAT TAATAT TAATAT TAATAT TAATAT TAATAT -TAATAT T
1035623 GTTATATTCT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
5 3 0.10
6 22 0.71
7 6 0.19
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (6 bp):
TAATAT
Found at i:1035779 original size:23 final size:22
Alignment explanation
Indices: 1035753--1035834 Score: 71
Period size: 21 Copynumber: 3.7 Consensus size: 22
1035743 ATAAAAATCC
1035753 TTAAAATATATTTATTAATAATT
1 TTAAAATATATTTATTAATAA-T
* *
1035776 TTAAAAGTATA-ATATTATTAAT
1 TTAAAA-TATATTTATTAATAAT
*
1035798 TTAATAA-ATATTTAAT-ATAAT
1 TTAA-AATATATTTATTAATAAT
* *
1035819 TTATAATATTTTTATT
1 TTAAAATATATTTATT
1035835 TTAATAGAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
20 2 0.04
21 17 0.36
22 8 0.17
23 16 0.34
24 4 0.09
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (22 bp):
TTAAAATATATTTATTAATAAT
Found at i:1037783 original size:22 final size:23
Alignment explanation
Indices: 1037752--1037799 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
1037742 TGAGGGTTTT
*
1037752 ATAGGCCCTTCGGGACATG-CTC
1 ATAGGCCCTTCGGGACAAGTCTC
*
1037774 ATAGGTCCTTCGGGACAAGTCTC
1 ATAGGCCCTTCGGGACAAGTCTC
1037797 ATA
1 ATA
1037800 TGCCACTCCG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.74
23 6 0.26
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.25
Consensus pattern (23 bp):
ATAGGCCCTTCGGGACAAGTCTC
Found at i:1044520 original size:22 final size:23
Alignment explanation
Indices: 1044492--1044541 Score: 75
Period size: 22 Copynumber: 2.2 Consensus size: 23
1044482 GTCGAGGGTT
*
1044492 TCATAGGTCCTTCAGGACATA-C
1 TCATAGGTCCTTCAGGACAAATC
*
1044514 TCATAGGTCCTTCGGGACAAATC
1 TCATAGGTCCTTCAGGACAAATC
1044537 TCATA
1 TCATA
1044542 TGCCACTCAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.76
23 6 0.24
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (23 bp):
TCATAGGTCCTTCAGGACAAATC
Found at i:1046009 original size:22 final size:22
Alignment explanation
Indices: 1045957--1046015 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
1045947 ATGTTAGTTT
1045957 AATTTTTTAATAAAATAAATAA
1 AATTTTTTAATAAAATAAATAA
* *
1045979 AATAATTTTAAT-TAATAAATTAA
1 AAT-TTTTTAATAAAATAAA-TAA
*
1046002 CATTTTTTAA-AAAA
1 AATTTTTTAATAAAA
1046016 GTGATTAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
22 17 0.59
23 12 0.41
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (22 bp):
AATTTTTTAATAAAATAAATAA
Found at i:1047129 original size:21 final size:21
Alignment explanation
Indices: 1047095--1047168 Score: 60
Period size: 21 Copynumber: 3.5 Consensus size: 21
1047085 ATACTGACTA
* *
1047095 TCGCAATGCAATTTTCCTAAT
1 TCGCAATGCGATTTTCATAAT
* * *
1047116 TCGCATTGCGATTTAACGT-AT
1 TCGCAATGCGATTT-TCATAAT
* **
1047137 TCACGTTGCGATTTTCATAAT
1 TCGCAATGCGATTTTCATAAT
1047158 TCGCAATGCGA
1 TCGCAATGCGA
1047169 ATACGTAAAT
Statistics
Matches: 40, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
20 2 0.05
21 36 0.90
22 2 0.05
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (21 bp):
TCGCAATGCGATTTTCATAAT
Found at i:1047183 original size:20 final size:20
Alignment explanation
Indices: 1047158--1047269 Score: 127
Period size: 20 Copynumber: 5.5 Consensus size: 20
1047148 TTTTCATAAT
1047158 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* * * *
1047178 TCGCAACGCTATTAAGTAAA
1 TCGCAATGCGAATACGTAAA
* *
1047198 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAA-TACGTAAA
1047219 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
1047239 TCGCAATGCGAAT-CTTACTA
1 TCGCAATGCGAATACGTA-AA
1047259 TCGCAATGCGA
1 TCGCAATGCGA
1047270 TTTACATAGC
Statistics
Matches: 77, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
19 3 0.04
20 56 0.73
21 18 0.23
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.22
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:1047238 original size:41 final size:41
Alignment explanation
Indices: 1047158--1047251 Score: 127
Period size: 41 Copynumber: 2.3 Consensus size: 41
1047148 TTTTCATAAT
* * *
1047158 TCGCAATGCGAA-TACGTAAATCGCAACGCTATTAAGTAAA
1 TCGCAATGCGAATTACGAAAATCGCAACGCGAATAAGTAAA
* * *
1047198 TCGCAATGCGAATTAGGAAAATCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATTACGAAAATCGCAACGCGAATAAGTAAA
1047239 TCGCAATGCGAAT
1 TCGCAATGCGAAT
1047252 CTTACTATCG
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
40 12 0.26
41 35 0.74
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.21
Consensus pattern (41 bp):
TCGCAATGCGAATTACGAAAATCGCAACGCGAATAAGTAAA
Found at i:1047887 original size:14 final size:14
Alignment explanation
Indices: 1047868--1047989 Score: 82
Period size: 14 Copynumber: 7.6 Consensus size: 14
1047858 TTTCATTTCG
1047868 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
1047882 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
1047901 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
1047915 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
1047934 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
1047948 CGTTGCGATAGTCATTTCG
1 CGTTGCGAT--TC---TCT
1047967 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
1047981 CGTTGCGAT
1 CGTTGCGAT
1047990 AGTCATTTCC
Statistics
Matches: 87, Mismatches: 6, Indels: 30
0.71 0.05 0.24
Matches are distributed among these distances:
14 40 0.46
16 8 0.09
17 8 0.09
19 31 0.36
ACGTcount: A:0.10, C:0.25, G:0.23, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:1047893 original size:33 final size:33
Alignment explanation
Indices: 1047851--1048038 Score: 277
Period size: 33 Copynumber: 5.5 Consensus size: 33
1047841 CAAAATCGCA
1047851 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1047884 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1047917 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
**
1047950 TTGCGATAGTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
**
1047983 TTGCGATAGTCATTTCCGCGTTGCGATTTTCATTATCTCG
1 TTGCGATTTTCATTT-CGCGTTGCGA--TTC----TCTCG
1048023 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
1048039 AACCAAAAGA
Statistics
Matches: 144, Mismatches: 4, Indels: 8
0.92 0.03 0.05
Matches are distributed among these distances:
33 112 0.78
34 10 0.07
36 3 0.02
39 1 0.01
40 18 0.12
ACGTcount: A:0.11, C:0.23, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:1050148 original size:21 final size:21
Alignment explanation
Indices: 1050124--1050190 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
1050114 TCATTCCTCG
1050124 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
1050145 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
1050166 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
1050187 AGAG
1 AGAG
1050191 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:1050148 original size:42 final size:42
Alignment explanation
Indices: 1050072--1050190 Score: 107
Period size: 42 Copynumber: 2.8 Consensus size: 42
1050062 GACTCGCCTG
* * * * * * *
1050072 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
*
1050114 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * *
1050156 TCA-TCGTTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 TCATTCCTCG-AGA-GTCCCCTCCCACCGTTCAAGAG
1050191 CCCGATTCAC
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 4 0.06
42 58 0.91
43 2 0.03
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.23
Consensus pattern (42 bp):
TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
Found at i:1051559 original size:14 final size:14
Alignment explanation
Indices: 1051540--1051575 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
1051530 ATTGTTTAAT
1051540 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
1051554 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
1051568 TGATTTGT
1 TGATTTGT
1051576 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Done.