Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 145 of 410
Found at i:43934076 original size:27 final size:27
Alignment explanation
Indices: 43934024--43934103 Score: 115
Period size: 27 Copynumber: 2.9 Consensus size: 27
43934014 GTGACAGAGT
*
43934024 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGGGC
*
43934053 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGGGC
43934080 CACCAGAACAGATAATTTGTGGCA
1 CACCAGAACAGAT-ATTTGTGGCA
43934104 TATCCACCAG
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
27 24 0.51
28 16 0.34
29 7 0.15
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGGGC
Found at i:43934110 original size:28 final size:27
Alignment explanation
Indices: 43934024--43934113 Score: 101
Period size: 27 Copynumber: 3.2 Consensus size: 27
43934014 GTGACAGAGT
*
43934024 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
* *
43934053 CACCAGAACAGAT-ATATGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
*
43934080 CACCAGAACAGATAATTTGTGGCATATC
1 CACCAGAACAGATAATTTGTGGCAT-GC
43934108 CACCAG
1 CACCAG
43934114 GACGCTTCCT
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
27 24 0.45
28 22 0.42
29 7 0.13
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.21
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:43934266 original size:28 final size:28
Alignment explanation
Indices: 43934219--43934283 Score: 87
Period size: 28 Copynumber: 2.3 Consensus size: 28
43934209 AAATTAACCC
* *
43934219 TAGGGGTATAGAGGTCATTTTGCATACA
1 TAGGGGTATAGAGGTAATTTGGCATACA
*
43934247 TAGGGGTATA-ATGGTAATTTGGCATACG
1 TAGGGGTATAGA-GGTAATTTGGCATACA
43934275 TAGGGGTAT
1 TAGGGGTAT
43934284 TCTAGTAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
27 1 0.03
28 32 0.97
ACGTcount: A:0.28, C:0.08, G:0.32, T:0.32
Consensus pattern (28 bp):
TAGGGGTATAGAGGTAATTTGGCATACA
Found at i:43941126 original size:46 final size:44
Alignment explanation
Indices: 43941066--43941231 Score: 165
Period size: 46 Copynumber: 3.6 Consensus size: 44
43941056 TCTCGTAGCT
*
43941066 GATGCATGTCCCAGACATGTCTTACATTGGCTTACGTCTCAAGGGC
1 GATGCATGTCCCAGACATGTCTTACATTGGC-T-CGTCTCAATGGC
* * *
43941112 GATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAATGTC
1 GATGCATGTCCCAGACATGTCTTACA-TTG-GCTCGTCTCAATGGC
* *
43941158 GATTCCATGTCCCA-AGCATGGTCTTACATTGGCTC-TCATAATATGGC
1 GA-TGCATGTCCCAGA-CAT-GTCTTACATTGGCTCGTC-TCA-ATGGC
*
43941205 TGATGCATGTCCCAGATATGTCTTACA
1 -GATGCATGTCCCAGACATGTCTTACA
43941232 CTAGCTCACA
Statistics
Matches: 100, Mismatches: 11, Indels: 18
0.78 0.09 0.14
Matches are distributed among these distances:
45 2 0.02
46 52 0.52
47 34 0.34
48 12 0.12
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (44 bp):
GATGCATGTCCCAGACATGTCTTACATTGGCTCGTCTCAATGGC
Found at i:43948771 original size:22 final size:22
Alignment explanation
Indices: 43948745--43948788 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
43948735 AAATATTAAC
*
43948745 ATAATGAATTTTAATTAATTTT
1 ATAATAAATTTTAATTAATTTT
*
43948767 ATAATAAATTTTAATTATTTTT
1 ATAATAAATTTTAATTAATTTT
43948789 GATTATTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
ATAATAAATTTTAATTAATTTT
Found at i:43960710 original size:22 final size:21
Alignment explanation
Indices: 43960685--43960735 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
43960675 TTCGTACTTC
*
43960685 AATTATTAACATAATTAATTTT
1 AATTATT-ACATAATAAATTTT
**
43960707 AATTAATTTTATAATAAATTTT
1 AATT-ATTACATAATAAATTTT
43960729 AATTATT
1 AATTATT
43960736 TTTTATTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 3 0.12
22 19 0.76
23 3 0.12
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (21 bp):
AATTATTACATAATAAATTTT
Found at i:43960738 original size:22 final size:22
Alignment explanation
Indices: 43960695--43960738 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
43960685 AATTATTAAC
*
43960695 ATAATTAATTTTAATTAATTTT
1 ATAATAAATTTTAATTAATTTT
*
43960717 ATAATAAATTTTAATTATTTTT
1 ATAATAAATTTTAATTAATTTT
43960739 TATTATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
ATAATAAATTTTAATTAATTTT
Found at i:43960748 original size:11 final size:10
Alignment explanation
Indices: 43960696--43960748 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
43960686 ATTATTAACA
*
43960696 TAATTAATTT
1 TAATTATTTT
43960706 TAATTAATTTT
1 TAATT-ATTTT
* *
43960717 ATAATAAATTT
1 -TAATTATTTT
43960728 TAATTATTTT
1 TAATTATTTT
*
43960738 TTATTATTTT
1 TAATTATTTT
43960748 T
1 T
43960749 GACAGAATTA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
10 23 0.66
11 8 0.23
12 4 0.11
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (10 bp):
TAATTATTTT
Found at i:43962878 original size:2 final size:2
Alignment explanation
Indices: 43962871--43963266 Score: 127
Period size: 2 Copynumber: 207.5 Consensus size: 2
43962861 TCAGAACCTT
* * * *
43962871 GA GA GA GA GA GA GA AA GA GA GA GA GG GG GA -A GA GA GA GG GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* * * * *
43962912 GA GA GG GA GA GA GA G- GG GG GA GA GA GA -A TGG GA G- GA -A AA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA -GA GA GA GA GA GA
* * * *
43962951 GG GG GA GA GA GA GA GG GG GA G- GA G- GA GA TG- GA GA TG- GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA -GA GA GA -GA GA GA
* * *
43962991 TG- GA GA TA GA TA GA GA GA GA GA GA GA GA GA GA GA GA GA GT GA
1 -GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* * * * * * * *
43963033 GT GA GA GT GA GT GA GT GA GT GA GT GA GT GA -A G- GG GA GA -A
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* * * * * * *
43963072 G- GA GA GG GA GA AA GG GG GA GA GT GA GG GG GA GA -A G- GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* * * *
43963111 GT GA G- GA -A GA GA GG GT GA GA GA GA GA GA GA GA GA AA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* * * *
43963151 GA GG GA GA GA GA GA GG GA GA AA GA GG GA GA GA -A GA -A GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* * * * * * * * * * *
43963191 GG GG GA GA GT GG GA GA GT GG GG GA AA GA GA GA GG GG GA GA GG
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* *
43963233 GA GG GA GA GA G- GG GA GA GA G- GA -A GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
43963267 TCTGCTAGTG
Statistics
Matches: 288, Mismatches: 79, Indels: 54
0.68 0.19 0.13
Matches are distributed among these distances:
1 23 0.08
2 262 0.91
3 3 0.01
ACGTcount: A:0.39, C:0.00, G:0.56, T:0.05
Consensus pattern (2 bp):
GA
Found at i:43962906 original size:13 final size:13
Alignment explanation
Indices: 43962888--43962970 Score: 60
Period size: 13 Copynumber: 6.0 Consensus size: 13
43962878 AGAGAGAAAG
43962888 AGAGAGAGGGGGA
1 AGAGAGAGGGGGA
43962901 AGAGAGAGGGAGAGA
1 AGAGAGAGGG-G-GA
*
43962916 GGGAGAGAGAGGGGGG
1 ---AGAGAGAGGGGGA
**
43962932 AGAGAGAATGGGA
1 AGAGAGAGGGGGA
* *
43962945 GGA-AAAGGGGGA
1 AGAGAGAGGGGGA
43962957 GAGAGAGAGGGGGA
1 -AGAGAGAGGGGGA
43962971 GGAGGAGATG
Statistics
Matches: 53, Mismatches: 10, Indels: 13
0.70 0.13 0.17
Matches are distributed among these distances:
12 6 0.11
13 24 0.45
14 9 0.17
15 2 0.04
16 1 0.02
17 1 0.02
18 10 0.19
ACGTcount: A:0.39, C:0.00, G:0.60, T:0.01
Consensus pattern (13 bp):
AGAGAGAGGGGGA
Found at i:43962913 original size:21 final size:20
Alignment explanation
Indices: 43962871--43963264 Score: 160
Period size: 20 Copynumber: 19.9 Consensus size: 20
43962861 TCAGAACCTT
* * *
43962871 GAGAGAGAGAGAGAAAGAGA
1 GAGAGAGGGAGAGAGAGAGG
*
43962891 GAGAGGGGGA-AGAGAGAGG
1 GAGAGAGGGAGAGAGAGAGG
43962910 GAGAGAGGGAGAGAGAG-GG
1 GAGAGAGGGAGAGAGAGAGG
* *
43962929 G-G-GAGAGAGA-ATGGGAGG
1 GAGAGAGGGAGAGA-GAGAGG
* * *
43962947 AAAAGGGGGAGAGAGAGAGG
1 GAGAGAGGGAGAGAGAGAGG
* *
43962967 GGGAG-GAGGAGATG-GAGATG
1 GAGAGAG-GGAGA-GAGAGAGG
* * * *
43962987 GAGATG-GAGATAGATAGAGA
1 GAGA-GAGGGAGAGAGAGAGG
* *
43963007 GAGAGAGAGAGAGAGAGAGA
1 GAGAGAGGGAGAGAGAGAGG
* * * *
43963027 GAGTGAGTGAGAGTGAGTGAGT
1 GAGAGAG-G-GAGAGAGAGAGG
* * *
43963049 GAGTGAGTGAGTGA-AG-GG
1 GAGAGAGGGAGAGAGAGAGG
* *
43963067 GAGA-AGGAGAGGGAGAAAGG
1 GAGAGAGG-GAGAGAGAGAGG
* * * * *
43963087 GGGAGAGTGAGGGGGAGAAG
1 GAGAGAGGGAGAGAGAGAGG
*
43963107 GAGAGTGAGGA-AGAGAG-GG
1 GAGAGAG-GGAGAGAGAGAGG
* **
43963126 TGAGAGAGAGAGAGAGAGAAA
1 -GAGAGAGGGAGAGAGAGAGG
43963147 GAGAGAGGGAGAGAGAGAGG
1 GAGAGAGGGAGAGAGAGAGG
43963167 GAGAAAGAGGGAGAGA-AGA--
1 GAG--AGAGGGAGAGAGAGAGG
*
43963186 -AGAGAGGG-G-GAGAGTGG
1 GAGAGAGGGAGAGAGAGAGG
* *
43963203 GAGAGTGGGGGAAAGAGAGAGG
1 GAGA--GAGGGAGAGAGAGAGG
* *
43963225 GGGAGAGGGAGGGAGAGAGGG
1 GAGAGAGGGAGAGAGAGA-GG
*
43963246 GAGAGAGGAAGAGAGAGAG
1 GAGAGAGGGAGAGAGAGAG
43963265 AGTCTGCTAG
Statistics
Matches: 277, Mismatches: 65, Indels: 64
0.68 0.16 0.16
Matches are distributed among these distances:
14 2 0.01
15 3 0.01
16 7 0.03
17 11 0.04
18 17 0.06
19 27 0.10
20 145 0.52
21 28 0.10
22 37 0.13
ACGTcount: A:0.39, C:0.00, G:0.56, T:0.05
Consensus pattern (20 bp):
GAGAGAGGGAGAGAGAGAGG
Found at i:43962914 original size:31 final size:31
Alignment explanation
Indices: 43962871--43962938 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
43962861 TCAGAACCTT
43962871 GAGAGAGAGAGAGAAAGAGAGAGAGGGGGAA
1 GAGAGAGAGAGAGAAAGAGAGAGAGGGGGAA
* ** *
43962902 GAGAGAGGGAGAGAGGGAGAGAGAGGGGGGA
1 GAGAGAGAGAGAGAAAGAGAGAGAGGGGGAA
43962933 GAGAGA
1 GAGAGA
43962939 ATGGGAGGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.43, C:0.00, G:0.57, T:0.00
Consensus pattern (31 bp):
GAGAGAGAGAGAGAAAGAGAGAGAGGGGGAA
Found at i:43962925 original size:12 final size:12
Alignment explanation
Indices: 43962873--43963266 Score: 158
Period size: 12 Copynumber: 33.9 Consensus size: 12
43962863 AGAACCTTGA
*
43962873 GAGAGAGAGAGA
1 GAGAGAGAGAGG
*
43962885 AAGAGAGAGAGG
1 GAGAGAGAGAGG
*
43962897 G-G-GA-AGAGA
1 GAGAGAGAGAGG
*
43962906 GAGGGAGAGAGG
1 GAGAGAGAGAGG
43962918 GAGAGAGAG-GG
1 GAGAGAGAGAGG
*
43962929 GGGAGAGAGAATGG
1 GAGAGAGAG-A-GG
* *
43962943 GAG-GAAAAGGGG
1 GAGAG-AGAGAGG
43962955 GAGAGAGAGAGG
1 GAGAGAGAGAGG
* *
43962967 GGGAGGAGGAGATG
1 GAGA-GA-GAGAGG
*
43962981 GAGATG-GAGATG
1 GAGA-GAGAGAGG
* * *
43962993 GAGATAGATAGA
1 GAGAGAGAGAGG
*
43963005 GAGAGAGAGAGA
1 GAGAGAGAGAGG
*
43963017 GAGAGAGAGAGA
1 GAGAGAGAGAGG
* * *
43963029 GTGAGTGAGAGT
1 GAGAGAGAGAGG
* * *
43963041 GAGTGAGTGAGT
1 GAGAGAGAGAGG
* *
43963053 GAGTGAGTGAAGG
1 GAGAGAGAG-AGG
43963066 G-GAGAAGGAGAGG
1 GAGAG-A-GAGAGG
*
43963079 GAGA-A-AGGGG
1 GAGAGAGAGAGG
* *
43963089 GAGAGTGAGGGG
1 GAGAGAGAGAGG
*
43963101 GAGA-AGGAGAGT
1 GAGAGA-GAGAGG
43963113 GAG-GAAGAGAGG
1 GAGAG-AGAGAGG
*
43963125 GTGAGAGAGA--
1 GAGAGAGAGAGG
43963135 GAGAGAGAGA--
1 GAGAGAGAGAGG
43963145 -A-AGAGAGAGG
1 GAGAGAGAGAGG
43963155 GAGAGAGAGAGG
1 GAGAGAGAGAGG
43963167 GAGA-A-AGAGG
1 GAGAGAGAGAGG
43963177 GAGAGAAGAAGAGAG
1 GAGAG-AG-AGAG-G
* *
43963192 G-GGGAGAGTGG
1 GAGAGAGAGAGG
*
43963203 GAGAGTG-G-GG
1 GAGAGAGAGAGG
*
43963213 GAAAGAGAGAGG
1 GAGAGAGAGAGG
* *
43963225 GGGAGAGGGA-G
1 GAGAGAGAGAGG
43963236 G-GAGAGAG-GG
1 GAGAGAGAGAGG
*
43963246 GAGAGAG-GA-A
1 GAGAGAGAGAGG
43963256 GAGAGAGAGAG
1 GAGAGAGAGAG
43963267 TCTGCTAGTG
Statistics
Matches: 293, Mismatches: 51, Indels: 76
0.70 0.12 0.18
Matches are distributed among these distances:
8 7 0.02
9 6 0.02
10 52 0.18
11 28 0.10
12 156 0.53
13 16 0.05
14 26 0.09
15 2 0.01
ACGTcount: A:0.39, C:0.00, G:0.56, T:0.05
Consensus pattern (12 bp):
GAGAGAGAGAGG
Found at i:43965113 original size:61 final size:61
Alignment explanation
Indices: 43965018--43965139 Score: 235
Period size: 61 Copynumber: 2.0 Consensus size: 61
43965008 TGAGCACCAA
43965018 GTACTAAGAGAGCTGATATATGCAATGTCTTAATGCAATAGTTGCAATATAAAAACAATCT
1 GTACTAAGAGAGCTGATATATGCAATGTCTTAATGCAATAGTTGCAATATAAAAACAATCT
*
43965079 GTACTAAGAGTGCTGATATATGCAATGTCTTAATGCAATAGTTGCAATATAAAAACAATCT
1 GTACTAAGAGAGCTGATATATGCAATGTCTTAATGCAATAGTTGCAATATAAAAACAATCT
43965140 TTATATCTAA
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 60 1.00
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.30
Consensus pattern (61 bp):
GTACTAAGAGAGCTGATATATGCAATGTCTTAATGCAATAGTTGCAATATAAAAACAATCT
Found at i:43987270 original size:40 final size:39
Alignment explanation
Indices: 43987188--43987372 Score: 212
Period size: 40 Copynumber: 4.6 Consensus size: 39
43987178 TCGAATGATG
* * * *
43987188 TCCGGGCTAAGTCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGACTAAGTCCGAAGGCATTTGTGC-GAGTTACTAAA
43987227 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
43987267 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
** *
43987307 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 TCCGGACTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
* * *
43987348 -CCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGACTAAGT-CCGAAGGCATTTG
43987373 AACGAGTAGC
Statistics
Matches: 132, Mismatches: 10, Indels: 7
0.89 0.07 0.05
Matches are distributed among these distances:
39 11 0.08
40 112 0.85
41 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGACTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:43987379 original size:80 final size:79
Alignment explanation
Indices: 43987240--43987395 Score: 192
Period size: 80 Copynumber: 2.0 Consensus size: 79
43987230 GGACTAAGAT
* **
43987240 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAG-TAGCT
43987304 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAGTC
* * *
43987320 CCGAAGGCATTTGTGCGAGCTACTATAA-CCGGGCTATG-TCCCGAAGGTATTTGAACGAGTAGC
1 CCGAAGGCATTTGTGCGAGCTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGTAGC
*
43987383 TATATCCGGTTAA
64 TAAATCCGGTTAA
43987396 ACTCCGAAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
79 9 0.14
80 55 0.83
81 2 0.03
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAGTC
Found at i:43987386 original size:40 final size:40
Alignment explanation
Indices: 43987221--43987391 Score: 127
Period size: 40 Copynumber: 4.3 Consensus size: 40
43987211 GTGCTAAGTG
* * ** *
43987221 ACTATATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTT
1 ACTATAACCGGGCTAAG-TCCCGAAGGCATTTGAACGAGCT
* ** *
43987261 ACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTT
1 ACTATAA-CCGGGCTAAG-TCCCGAAGGCATTTGAACGAGCT
* **
43987301 ACTA-AATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCT
1 ACTATAA-CCGGGCTAAGTCCCGAAGGCATTTGAACGAGCT
* *
43987341 ACTATAACCGGGCTATGTCCCGAAGGTATTTGAACGAG-T
1 ACTATAACCGGGCTAAGTCCCGAAGGCATTTGAACGAGCT
*
43987380 AGCTATATCCGG
1 A-CTATAACCGG
43987392 TTAAACTCCG
Statistics
Matches: 117, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
39 4 0.03
40 111 0.95
41 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (40 bp):
ACTATAACCGGGCTAAGTCCCGAAGGCATTTGAACGAGCT
Found at i:43995389 original size:39 final size:39
Alignment explanation
Indices: 43995243--43995427 Score: 221
Period size: 40 Copynumber: 4.6 Consensus size: 39
43995233 TCGAATGATG
* * *
43995243 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
*
43995283 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
43995323 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* *
43995363 TCCGGGTTAAGTCCGAAGGCATTTGTGCGAGCTACTATAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
43995403 -CCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
43995428 AACGAGTAGC
Statistics
Matches: 131, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
39 34 0.26
40 89 0.68
41 8 0.06
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:43995427 original size:79 final size:80
Alignment explanation
Indices: 43995243--43995427 Score: 225
Period size: 79 Copynumber: 2.3 Consensus size: 80
43995233 TCGAATGATG
* *
43995243 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
*
43995308 GTGCGAGTTACTAAA
66 GTGCGAGCTACTAAA
* * * **
43995323 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCGAAGGCAT
1 TCCGGGCTAAG-TCCCGAAGG-ATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCAT
43995385 TTGTGCGAGCTACTATAA
64 TTGTGCGAGCTACTA-AA
*
43995403 -CCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGGCTAAGTCCCGAAGG-ATTTG
43995428 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
78 1 0.01
79 45 0.50
80 36 0.40
81 8 0.09
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGCTACTAAA
Found at i:43995434 original size:79 final size:78
Alignment explanation
Indices: 43995290--43995460 Score: 195
Period size: 79 Copynumber: 2.2 Consensus size: 78
43995280 ATATCCGGAC
* **
43995290 TAAGATCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAG
1 TAAG-TCCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAG
43995355 TTA-CTAAATCCGGGT
65 -TAGCTAAATCC-GGT
* * *
43995370 TAAGTCCGAAGGCATTTGTGCGAGCTACTATAA-CCGGGCTATG-TCCCGAAGGTATTTGAACGA
1 TAAGTCCGAAGGCATTTGTGCGAGCTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGA
*
43995433 GTAGCTATATCCGGT
64 GTAGCTAAATCCGGT
*
43995448 TAAACTCCGAAGG
1 T-AAGTCCGAAGG
43995461 TACGTGATTC
Statistics
Matches: 79, Mismatches: 8, Indels: 9
0.82 0.08 0.09
Matches are distributed among these distances:
78 7 0.09
79 66 0.84
80 6 0.08
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (78 bp):
TAAGTCCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGT
AGCTAAATCCGGT
Found at i:44002233 original size:37 final size:37
Alignment explanation
Indices: 44002154--44002236 Score: 130
Period size: 37 Copynumber: 2.2 Consensus size: 37
44002144 AACCTTTAGT
* * *
44002154 TCGGGGCTTACCCGGACAAAATCTCCACTCGTGGTCA
1 TCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCA
*
44002191 TCGGGTCTTACCCGGACATAATCTCCACACGTAGTCA
1 TCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCA
44002228 TCGGGTCTT
1 TCGGGTCTT
44002237 TAGAGCTCGG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.20, C:0.31, G:0.23, T:0.25
Consensus pattern (37 bp):
TCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCA
Found at i:44002423 original size:47 final size:47
Alignment explanation
Indices: 44002354--44002932 Score: 933
Period size: 47 Copynumber: 12.3 Consensus size: 47
44002344 CCCTTCGGGA
* * * * *
44002354 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
44002401 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
44002448 CTTATCACATATATGCACTTTCACATTCATCACATGGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
44002495 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
44002542 CTTATCTCATATATGCACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44002589 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
44002636 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
44002683 CTTGTCACATATTTACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
44002730 CTTATCTCATATATGCACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44002777 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
44002824 CTTGTCACATATATACACTTTCACATTCATCACATCGGTCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
44002871 CTTATCACATATATGCACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44002918 CTTATCACATATATA
1 CTTATCACATATATA
44002933 TATCTCATAC
Statistics
Matches: 496, Mismatches: 36, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 496 1.00
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:44002432 original size:25 final size:25
Alignment explanation
Indices: 44002404--44002482 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
44002394 ACTCGGCCTT
*
44002404 ATCACATATATACACTTTCACATTC
1 ATCACATATATGCACTTTCACATTC
* * * *
44002429 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATGCACTTTC-ACATTC
44002451 ATCACATATATGCACTTTCACATTC
1 ATCACATATATGCACTTTCACATTC
44002476 ATCACAT
1 ATCACAT
44002483 GGGCCATTAG
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.12
24 6 0.15
25 18 0.45
ACGTcount: A:0.30, C:0.29, G:0.06, T:0.34
Consensus pattern (25 bp):
ATCACATATATGCACTTTCACATTC
Found at i:44009730 original size:41 final size:41
Alignment explanation
Indices: 44009685--44009802 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
44009675 GCTCTCTTGT
44009685 CTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAG
1 CTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAG
* * * * *
44009726 CTACAT-TTATCTTTCAC---G--T-A-GC-T-C--TCTTG
1 CTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAG
44009755 TCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAG
1 -CTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAG
44009797 CTACAT
1 CTACAT
44009803 TTATCTTTCA
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 3 0.06
30 6 0.11
31 9 0.17
32 1 0.02
33 2 0.04
34 2 0.04
35 1 0.02
36 1 0.02
37 2 0.04
38 2 0.04
39 1 0.02
40 9 0.17
41 12 0.22
42 3 0.06
ACGTcount: A:0.21, C:0.29, G:0.18, T:0.32
Consensus pattern (41 bp):
CTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAG
Found at i:44009752 original size:71 final size:71
Alignment explanation
Indices: 44009666--44009834 Score: 329
Period size: 71 Copynumber: 2.4 Consensus size: 71
44009656 CTAACCGATT
44009666 TTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACA
1 TTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACA
44009731 TTTATC
66 TTTATC
44009737 TTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACA
1 TTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACA
44009802 TTTATC
66 TTTATC
*
44009808 TTTCACGTAGCTCTCTTGTCAACATGG
1 TTTCACGTAGCTCTCTTGTCTACATGG
44009835 GATACATCTC
Statistics
Matches: 97, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 97 1.00
ACGTcount: A:0.20, C:0.28, G:0.17, T:0.36
Consensus pattern (71 bp):
TTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACA
TTTATC
Found at i:44009872 original size:71 final size:70
Alignment explanation
Indices: 44009666--44009868 Score: 250
Period size: 71 Copynumber: 2.9 Consensus size: 70
44009656 CTAACCGATT
* * * * *
44009666 TTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACA
1 TTTCACGTAGCTCTCTTGTCAACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACA
44009731 TTTATC
65 TTTATC
* * * * *
44009737 TTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACA
1 TTTCACGTAGCTCTCTTGTCAACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACA
44009802 TTTATC
65 TTTATC
* *
44009808 TTTCACGTAGCTCTCTTGTCAACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 TTTCACGTAGCTCTCTTGTCAACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
44009869 TACAGGGTGT
Statistics
Matches: 124, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 100 0.81
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
TTTCACGTAGCTCTCTTGTCAACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACAT
TTATC
Found at i:44011848 original size:48 final size:48
Alignment explanation
Indices: 44011783--44012297 Score: 430
Period size: 48 Copynumber: 10.7 Consensus size: 48
44011773 TAATATGTGT
* *
44011783 GCCAGTATAAGACCATGTCTGGGACATGGCATCGACCATGATATGAGA
1 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGACCATGATATGAGA
* * * *
44011831 GCCAGTGTAAGAGCATGTCTGGGACATGGCATCGA-CATTGATATGTGC
1 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGACCA-TGATATGAGA
* * * * *
44011879 GCTAGTGTAAGACCATGTTTGGAACGTGGCATC-AGCCACGATGTGAGA
1 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGA-CCATGATATGAGA
* * * *
44011927 GCCAGTGAAAGACCATGTTTGGGACATGGCATCG-GCATTGATATGTGT
1 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGACCA-TGATATGAGA
* * *
44011975 GCTAGTGTAAGACCATATTTGGAACATGGCATC-AGCCATGATATGAGA
1 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGA-CCATGATATGAGA
* * * * * * *
44012023 CCCAGTGGAAGACCATGTTTGGAACATGGCATCTACGATGTTGTGAGA
1 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGACCATGATATGAGA
* * * ** ***
44012071 GCCAGCGTAAGACCATGTTTAGGACATGACATCG-GTATTGATATGTTT
1 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGACCA-TGATATGAGA
* * * * *
44012119 GCTAGTGTAAGACCATGTTTGGAACATGGCATCAACCACGTTATGAGA
1 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGACCATGATATGAGA
* * * *** * **
44012167 GCCAGTGTAAGACCATGTCTGGGACATGGTATTGGTAATGAGACAAGA
1 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGACCATGATATGAGA
* * * * *
44012215 GCTAGTGTAAGACCATATCTGGGACATGGCATCGACC-TCGACATGTGA
1 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGACCAT-GATATGAGA
* ** *
44012263 GTCAGTGTAAGACCATGTTTGAAACATGACATCGA
1 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGA
44012298 TAATTCACCC
Statistics
Matches: 361, Mismatches: 95, Indels: 22
0.76 0.20 0.05
Matches are distributed among these distances:
47 7 0.02
48 348 0.96
49 6 0.02
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (48 bp):
GCCAGTGTAAGACCATGTTTGGGACATGGCATCGACCATGATATGAGA
Found at i:44012043 original size:144 final size:144
Alignment explanation
Indices: 44011783--44012195 Score: 485
Period size: 144 Copynumber: 2.9 Consensus size: 144
44011773 TAATATGTGT
* * * * * *
44011783 GCCAGT-ATAAGACCATGTCTGGGACATGGCATCGACCA-TGATATGAGAGCCAGTGTAAGAGCA
1 GCCAGTGA-AAGACCATGTTTGGGACATGGCATCG-GCATTGATATGTGTGCTAGTGTAAGACCA
* * * * * *
44011846 TGTCTGGGACATGGCATC-GACATTGATATGTG-CGCTAGTGTAAGACCATGTTTGGAACGTGGC
64 TGTTTGGAACATGGCATCAGCCA-TGATATGAGAC-CCAGTGTAAGACCATGTTTGGAACATGGC
44011909 ATC-AGCCACGATGTGAGA
127 ATCTA-CCACGATGTGAGA
*
44011927 GCCAGTGAAAGACCATGTTTGGGACATGGCATCGGCATTGATATGTGTGCTAGTGTAAGACCATA
1 GCCAGTGAAAGACCATGTTTGGGACATGGCATCGGCATTGATATGTGTGCTAGTGTAAGACCATG
*
44011992 TTTGGAACATGGCATCAGCCATGATATGAGACCCAGTGGAAGACCATGTTTGGAACATGGCATCT
66 TTTGGAACATGGCATCAGCCATGATATGAGACCCAGTGTAAGACCATGTTTGGAACATGGCATCT
* * *
44012057 ACGATGTTGTGAGA
131 ACCACGATGTGAGA
* * * * * *
44012071 GCCAGCGTAAGACCATGTTTAGGACATGACATCGGTATTGATATGTTTGCTAGTGTAAGACCATG
1 GCCAGTGAAAGACCATGTTTGGGACATGGCATCGGCATTGATATGTGTGCTAGTGTAAGACCATG
* * * * * *
44012136 TTTGGAACATGGCATCAACCACGTTATGAGAGCCAGTGTAAGACCATGTCTGGGACATGG
66 TTTGGAACATGGCATCAGCCATGATATGAGACCCAGTGTAAGACCATGTTTGGAACATGG
44012196 TATTGGTAAT
Statistics
Matches: 233, Mismatches: 31, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
143 2 0.01
144 225 0.97
145 6 0.03
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (144 bp):
GCCAGTGAAAGACCATGTTTGGGACATGGCATCGGCATTGATATGTGTGCTAGTGTAAGACCATG
TTTGGAACATGGCATCAGCCATGATATGAGACCCAGTGTAAGACCATGTTTGGAACATGGCATCT
ACCACGATGTGAGA
Found at i:44014180 original size:15 final size:15
Alignment explanation
Indices: 44014155--44014189 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
44014145 ATTAAATAGG
44014155 AAAGA-AAAGAAAGA
1 AAAGAGAAAGAAAGA
44014169 AAAGAGAAAGAAAGA
1 AAAGAGAAAGAAAGA
44014184 AAAGAG
1 AAAGAG
44014190 GAGAAAGACA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 5 0.25
15 15 0.75
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (15 bp):
AAAGAGAAAGAAAGA
Found at i:44019705 original size:47 final size:47
Alignment explanation
Indices: 44019607--44019705 Score: 112
Period size: 47 Copynumber: 2.1 Consensus size: 47
44019597 TCCATAAGTG
* * * * * *
44019607 AACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACG
1 AACTCGGACTCAACTCAACGAGTTCGGATACATACTCACAACTCACC
44019654 AACTCGGACTCAACTCAACGAGTTCGGA-ACAT-CTCACGAACTCACTC
1 AACTCGGACTCAACTCAACGAGTTCGGATACATACTCAC-AACTCAC-C
44019701 AACTC
1 AACTC
44019706 AACGAGTTCG
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
45 3 0.07
46 8 0.18
47 33 0.75
ACGTcount: A:0.30, C:0.32, G:0.16, T:0.21
Consensus pattern (47 bp):
AACTCGGACTCAACTCAACGAGTTCGGATACATACTCACAACTCACC
Found at i:44019708 original size:36 final size:37
Alignment explanation
Indices: 44019644--44019717 Score: 132
Period size: 36 Copynumber: 2.0 Consensus size: 37
44019634 ATGCCTAGTT
44019644 ACATCTCACGAACTCGGACTCAACTCAACGAGTTCGGA
1 ACATCTCACGAACTC-GACTCAACTCAACGAGTTCGGA
44019682 ACATCTCACGAACTC-ACTCAACTCAACGAGTTCGGA
1 ACATCTCACGAACTCGACTCAACTCAACGAGTTCGGA
44019718 CATTCGCATC
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
36 21 0.58
38 15 0.42
ACGTcount: A:0.32, C:0.32, G:0.16, T:0.19
Consensus pattern (37 bp):
ACATCTCACGAACTCGACTCAACTCAACGAGTTCGGA
Found at i:44027270 original size:93 final size:93
Alignment explanation
Indices: 44027158--44027329 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
44027148 CGCCCATAAG
* *
44027158 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
44027223 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
44027251 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
44027316 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
44027330 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:44027326 original size:46 final size:46
Alignment explanation
Indices: 44027151--44027326 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
44027141 TGTAACCCGC
* * *
44027151 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
44027197 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
44027247 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
44027290 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
44027327 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:44034833 original size:93 final size:93
Alignment explanation
Indices: 44034721--44034892 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
44034711 CGCCCATAAG
* *
44034721 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
44034786 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
44034814 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
44034879 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
44034893 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:44034889 original size:46 final size:46
Alignment explanation
Indices: 44034714--44034889 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
44034704 TGTAACCCGC
* * *
44034714 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
44034760 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
44034810 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
44034853 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
44034890 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:44038808 original size:40 final size:39
Alignment explanation
Indices: 44038721--44038870 Score: 130
Period size: 40 Copynumber: 3.8 Consensus size: 39
44038711 AAATTGATGA
* * * **
44038721 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAAT-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTCATC
* *
44038759 TATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TAT--CCGGGCTAAGACCCGAAGGCAATTGTGCGAGT--CAT-C
44038802 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATC
*
44038840 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
44038871 AAATCGTGAT
Statistics
Matches: 91, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
38 5 0.05
39 30 0.33
40 53 0.58
41 1 0.01
42 2 0.02
ACGTcount: A:0.27, C:0.25, G:0.27, T:0.21
Consensus pattern (39 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATC
Found at i:44038855 original size:39 final size:38
Alignment explanation
Indices: 44038764--44038870 Score: 128
Period size: 39 Copynumber: 2.7 Consensus size: 38
44038754 GAAATTATAA
* *
44038764 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACAT
1 CCGGGCTAAGACCCGAAGGC-ATTGTGCGAGT-GCTACAT
44038804 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGT-C-ATCTAT
1 CCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGCTA-C-AT
44038843 CCGGGCTAAGACCCGAAGGCATTTGTGC
1 CCGGGCTAAGACCCGAAGGCA-TTGTGC
44038871 AAATCGTGAT
Statistics
Matches: 61, Mismatches: 2, Indels: 9
0.85 0.03 0.12
Matches are distributed among these distances:
37 1 0.02
38 2 0.03
39 30 0.49
40 28 0.46
ACGTcount: A:0.23, C:0.26, G:0.30, T:0.21
Consensus pattern (38 bp):
CCGGGCTAAGACCCGAAGGCATTGTGCGAGTGCTACAT
Found at i:44038885 original size:79 final size:79
Alignment explanation
Indices: 44038764--44038946 Score: 181
Period size: 79 Copynumber: 2.3 Consensus size: 79
44038754 GAAATTATAA
* * * *
44038764 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCATTCG
44038829 TGCGAGTCATCTAT
66 TGCGAGTCATCTAT
* * * * * * *
44038843 CCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGCCTTG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGCATTC
* * *
44038907 GTGCG-GTTACCATAA
65 GTGCGAGTCATC-TAT
* * *
44038922 CCGGGCTATGTCCCGAAGGCGATTG
1 CCGGGCTAAGACCCGAAGGCAATTG
44038947 ATCGAGTAGC
Statistics
Matches: 84, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
78 5 0.06
79 79 0.94
ACGTcount: A:0.22, C:0.25, G:0.30, T:0.22
Consensus pattern (79 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCATTCG
TGCGAGTCATCTAT
Found at i:44046961 original size:40 final size:39
Alignment explanation
Indices: 44046796--44046979 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
44046786 AAATTGAATG
* * *
44046796 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
44046836 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
44046876 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
44046916 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
44046955 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
44046980 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:44047004 original size:80 final size:81
Alignment explanation
Indices: 44046836--44047024 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
44046826 GCTGGAAATT
* * * *
44046836 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
44046901 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
44046917 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
44046980 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
44046996 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
44047025 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:44051002 original size:14 final size:14
Alignment explanation
Indices: 44050983--44051010 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
44050973 TATATTAGTA
44050983 TTTTCTATTCTATT
1 TTTTCTATTCTATT
44050997 TTTTCTATTCTATT
1 TTTTCTATTCTATT
44051011 AGTATTAGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTCTATTCTATT
Found at i:44051018 original size:6 final size:6
Alignment explanation
Indices: 44051007--44051085 Score: 66
Period size: 5 Copynumber: 14.2 Consensus size: 6
44050997 TTTTCTATTC
* *
44051007 TATTAG TATTAGAG TATTAG -ATTAG TATT-C TATT-C TATTAG TATTAG
1 TATTAG TATT--AG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG
44051054 -ATTAG TATTAG --TTAG -ATTAG -ATTAG TATTAG T
1 TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG T
44051086 TAGTGATCCC
Statistics
Matches: 64, Mismatches: 2, Indels: 14
0.80 0.03 0.17
Matches are distributed among these distances:
4 4 0.06
5 28 0.44
6 26 0.41
8 6 0.09
ACGTcount: A:0.33, C:0.03, G:0.16, T:0.48
Consensus pattern (6 bp):
TATTAG
Found at i:44051033 original size:11 final size:11
Alignment explanation
Indices: 44051008--44051089 Score: 50
Period size: 11 Copynumber: 7.5 Consensus size: 11
44050998 TTTCTATTCT
44051008 ATTAGTATTAG
1 ATTAGTATTAG
44051019 ---AGTATTAG
1 ATTAGTATTAG
**
44051027 ATTAGTATTCT
1 ATTAGTATTAG
*
44051038 ATT-CTATTAG
1 ATTAGTATTAG
44051048 TATTAG-ATTAG
1 -ATTAGTATTAG
44051059 TATTAGTTAGATTAG
1 -ATTAG-T--ATTAG
44051074 ATTAGTATTAG
1 ATTAGTATTAG
44051085 -TTAGT
1 ATTAGT
44051090 GATCCCGGCT
Statistics
Matches: 56, Mismatches: 6, Indels: 19
0.69 0.07 0.23
Matches are distributed among these distances:
8 8 0.14
10 9 0.16
11 28 0.50
13 1 0.02
14 5 0.09
15 5 0.09
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.48
Consensus pattern (11 bp):
ATTAGTATTAG
Found at i:44051074 original size:20 final size:21
Alignment explanation
Indices: 44051044--44051089 Score: 85
Period size: 20 Copynumber: 2.2 Consensus size: 21
44051034 TTCTATTCTA
44051044 TTAGTATTAGATTAGTATTAG
1 TTAGTATTAGATTAGTATTAG
44051065 TTAG-ATTAGATTAGTATTAG
1 TTAGTATTAGATTAGTATTAG
44051085 TTAGT
1 TTAGT
44051090 GATCCCGGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.48
Consensus pattern (21 bp):
TTAGTATTAGATTAGTATTAG
Found at i:44054435 original size:46 final size:46
Alignment explanation
Indices: 44054368--44054549 Score: 258
Period size: 46 Copynumber: 4.0 Consensus size: 46
44054358 AGTGTGCTCT
*
44054368 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
44054414 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* **
44054460 GTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
44054506 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
44054550 TCATGTCAAA
Statistics
Matches: 124, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 1 0.01
46 123 0.99
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:44063153 original size:24 final size:24
Alignment explanation
Indices: 44063121--44063168 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
44063111 CAATGGATTC
* *
44063121 CTCACCCTCAGGAGCCCGAAGTAA
1 CTCACCCTCAGCAGCCCCAAGTAA
* *
44063145 CTCATCCTCATCAGCCCCAAGTAA
1 CTCACCCTCAGCAGCCCCAAGTAA
44063169 TGAGTCTGAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.29, C:0.40, G:0.15, T:0.17
Consensus pattern (24 bp):
CTCACCCTCAGCAGCCCCAAGTAA
Found at i:44065268 original size:40 final size:41
Alignment explanation
Indices: 44065224--44065331 Score: 125
Period size: 40 Copynumber: 2.7 Consensus size: 41
44065214 TAATAGCTAT
* * *
44065224 CACAAATGCCTTCGGGACTTAACCCGGATTTAGG-AAC-TCG
1 CACAAATGCCTTCGGGACTTAGCCCGGATAT-GGTAACTTAG
* *
44065264 CACAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAG
1 CACAAATGCCTTCGGGA-CTTAGCCCGGATATGGTAACTTAG
44065305 CACAAA-GCCTTCGGGACTTAGCCCGGA
1 CACAAATGCCTTCGGGACTTAGCCCGGA
44065332 CATCATTCGA
Statistics
Matches: 58, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
39 5 0.09
40 42 0.72
41 11 0.19
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (41 bp):
CACAAATGCCTTCGGGACTTAGCCCGGATATGGTAACTTAG
Found at i:44070947 original size:46 final size:46
Alignment explanation
Indices: 44070897--44071069 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 46
44070887 TGGTTGAGCA
* *
44070897 TCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
44070943 TCCGAGCTCGTTGAGTTGAGTCCGAG-T---TTGTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCAA--A--CG
* *
44070990 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
44071036 CCCGAGCTCCTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
44071070 GGGCGGGTTA
Statistics
Matches: 103, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 4 0.04
43 6 0.06
45 2 0.02
46 55 0.53
47 25 0.24
48 2 0.02
50 5 0.05
51 4 0.04
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:44071053 original size:93 final size:93
Alignment explanation
Indices: 44070894--44071063 Score: 286
Period size: 93 Copynumber: 1.8 Consensus size: 93
44070884 GGATGGTTGA
* * *
44070894 GCATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCAAATGTCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCAAACGCCCGAGCTCCTTGAGT
44070959 TGAGTCCGAGTTTGTGAGATGTAACTAG
66 TGAGTCCGAGTTTGTGAGATGTAACTAG
* * *
44070987 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCCTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCAAACGCCCGAGCTCCTTGAGT
44071052 TGAGTCCGAGTT
66 TGAGTCCGAGTT
44071064 CACTTAGGGC
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCAAACGCCCGAGCTCCTTGAGT
TGAGTCCGAGTTTGTGAGATGTAACTAG
Found at i:44075939 original size:29 final size:29
Alignment explanation
Indices: 44075907--44076008 Score: 195
Period size: 29 Copynumber: 3.5 Consensus size: 29
44075897 ATAGTGAATC
44075907 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
44075936 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
44075965 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
44075994 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
44076009 GTACAATTTT
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
29 72 1.00
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.37
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:44077331 original size:19 final size:18
Alignment explanation
Indices: 44077307--44077342 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
44077297 CCCCCTTTTT
*
44077307 CTTTTCTTATTTTATTCCC
1 CTTTTCTT-TTTAATTCCC
44077326 CTTTTCTTTTTAATTCC
1 CTTTTCTTTTTAATTCC
44077343 TTTCTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.11, C:0.25, G:0.00, T:0.64
Consensus pattern (18 bp):
CTTTTCTTTTTAATTCCC
Found at i:44083740 original size:40 final size:40
Alignment explanation
Indices: 44083675--44083918 Score: 276
Period size: 40 Copynumber: 6.1 Consensus size: 40
44083665 CGGAATACAA
* ** * * *
44083675 CCGGATATAACCACACGCACGAATGCCCTCGGGTCTTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
*
44083715 CCGGATATAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
44083755 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
*
44083795 CCGGATATAACAATTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
* * * * * * *
44083835 CCGGATATAGTC-ACTAGCACAATTACCTTCGAGTCTTAAC
1 CCGGATATA-ACAACTTGCACAAATGCCTTCGGGTATTAGC
** * * *
44083875 CCGGATATAATTACTAGCATAAATGTCTTCGGG-ACTTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTA-TTAGC
44083915 CCGG
1 CCGG
44083919 GTATCATTCA
Statistics
Matches: 176, Mismatches: 25, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
40 175 0.99
41 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.25
Consensus pattern (40 bp):
CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
Found at i:44084073 original size:64 final size:64
Alignment explanation
Indices: 44084005--44084193 Score: 142
Period size: 64 Copynumber: 3.0 Consensus size: 64
44083995 GAACACAAAC
44084005 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
1 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
* * * * *** * *** * ** * *
44084069 ATATCAATA--ATCATTACACATCCATATTTCATTTTC-GTTA-C--T--AAGGCTCAAACACAA
1 ATATCACTAGCATAATTGC-CTTCGGGACTT-A-GCCCGGGTACCATTCAAATACTCATACACAC
*
44084126 AC
63 AT
44084128 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
1 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
44084192 AT
1 AT
44084194 GTCAATAATC
Statistics
Matches: 80, Mismatches: 34, Indels: 22
0.59 0.25 0.16
Matches are distributed among these distances:
58 1 0.01
59 24 0.30
60 7 0.09
61 7 0.09
62 7 0.09
63 7 0.09
64 26 0.32
65 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.29
Consensus pattern (64 bp):
ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
Found at i:44084106 original size:123 final size:123
Alignment explanation
Indices: 44083887--44084225 Score: 597
Period size: 123 Copynumber: 2.8 Consensus size: 123
44083877 GGATATAATT
* * * * * * *
44083887 ACTAGCATAAATGTCTTCGGGACTTAGCCCGGGTATCATTCAATTGCTCATGCACACATAAATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
*
44083952 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCGAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
44084010 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
44084075 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
*
44084133 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATGTCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
44084198 ATAATCATTACACATCCATATTTCATTT
66 ATAATCATTACACATCCATATTTCATTT
44084226 CACATAATTC
Statistics
Matches: 207, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
123 207 1.00
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (123 bp):
ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
Found at i:44086847 original size:27 final size:29
Alignment explanation
Indices: 44086817--44086901 Score: 84
Period size: 29 Copynumber: 3.0 Consensus size: 29
44086807 ACGCAAGAGC
*
44086817 ATATA-GTGAATC-CGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
* **
44086844 ATATATTTTCAGCTCGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
* ** *
44086873 ATATATTTTCAGTTCGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
44086902 GTACAATTTT
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
27 5 0.10
28 3 0.06
29 43 0.84
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.36
Consensus pattern (29 bp):
ATATATGTGAAGCTCGCACACTTAGTGCT
Found at i:44086861 original size:29 final size:29
Alignment explanation
Indices: 44086829--44086901 Score: 137
Period size: 29 Copynumber: 2.5 Consensus size: 29
44086819 ATAGTGAATC
44086829 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
44086858 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
44086887 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
44086902 GTACAATTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.37
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:44088223 original size:19 final size:18
Alignment explanation
Indices: 44088199--44088234 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
44088189 CCCCCTTTTT
*
44088199 CTTTTCTTATTTTATTCCC
1 CTTTTCTT-TTTAATTCCC
44088218 CTTTTCTTTTTAATTCC
1 CTTTTCTTTTTAATTCC
44088235 TTTCTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.11, C:0.25, G:0.00, T:0.64
Consensus pattern (18 bp):
CTTTTCTTTTTAATTCCC
Found at i:44098720 original size:31 final size:27
Alignment explanation
Indices: 44098663--44098716 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
44098653 CAAGTAGCAA
44098663 GTTGGTTCAGTGCGAATTCCTTTCTTT
1 GTTGGTTCAGTGCGAATTCCTTTCTTT
*
44098690 GTTGGTTCAGTGTGAATTCCTTTCTTT
1 GTTGGTTCAGTGCGAATTCCTTTCTTT
44098717 CTTTTTTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.11, C:0.17, G:0.22, T:0.50
Consensus pattern (27 bp):
GTTGGTTCAGTGCGAATTCCTTTCTTT
Found at i:44102411 original size:40 final size:40
Alignment explanation
Indices: 44102366--44102532 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
44102356 CGGAATATAA
44102366 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
44102406 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
44102446 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
44102486 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
44102525 CCGGATAT
1 CCGGATAT
44102533 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:44102516 original size:80 final size:79
Alignment explanation
Indices: 44102366--44102532 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
44102356 CGGAATATAA
* *
44102366 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
44102431 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
44102446 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
44102508 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
44102525 CCGGATAT
1 CCGGATAT
44102533 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:44103380 original size:17 final size:19
Alignment explanation
Indices: 44103357--44103402 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
44103347 AAGAAGCATG
44103357 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
44103375 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
44103393 AATCATGCTC
1 AATCATGCTC
44103403 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:44111995 original size:40 final size:41
Alignment explanation
Indices: 44111917--44112172 Score: 248
Period size: 40 Copynumber: 6.3 Consensus size: 41
44111907 ACCCAAGTAT
* *
44111917 CTTCGGGATTTAG-CCGGATATAG-CAACT--CGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGTGC-CAAATGC
* **
44111956 CTTCGGGTCTTAGCCCGGATATAGTCACTAGTG-TGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGTGCCAAATGC
44111996 CTTCGGGACTTAGCCCGGATATAGTCACTA--GCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGTGC-CAAATGC
* *
44112036 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGT-GC-CAAATGC
* * * *
44112079 CTTCGGGACTTAGCCCAGATATAGTAACT--TGCAGAAATAC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGTGC-CAAATGC
*
44112119 CTTCGGGACTTAGCCCGGATATAGTAACT--TGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGTGC-CAAATGC
44112159 CTTCGGGACTTAGC
1 CTTCGGGACTTAGC
44112173 GGATATCATC
Statistics
Matches: 189, Mismatches: 17, Indels: 21
0.83 0.07 0.09
Matches are distributed among these distances:
38 1 0.01
39 12 0.06
40 138 0.73
41 2 0.01
42 1 0.01
43 35 0.19
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (41 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGTGCCAAATGC
Found at i:44112049 original size:80 final size:80
Alignment explanation
Indices: 44111917--44112172 Score: 302
Period size: 80 Copynumber: 3.2 Consensus size: 80
44111907 ACCCAAGTAT
* * *
44111917 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
**
44111980 TCACTAGTGTGAATGC
65 TCACTAGTGCAAATGC
*
44111996 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAG-
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
*
44112060 CAACTACTCGCACAAATGC
66 C-ACTAGT-G--CAAATGC
* * * * *
44112079 CTTCGGGACTTAGCCCAGATATAGTAACTTGCAGAAATACCTTCGGGACTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
* * **
44112144 AACTTGCACAAATGC
66 CACTAGTGCAAATGC
44112159 CTTCGGGACTTAGC
1 CTTCGGGACTTAGC
44112173 GGATATCATC
Statistics
Matches: 152, Mismatches: 18, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
79 13 0.09
80 71 0.47
81 2 0.01
83 66 0.43
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGTGCAAATGC
Found at i:44112161 original size:123 final size:119
Alignment explanation
Indices: 44111917--44112172 Score: 363
Period size: 123 Copynumber: 2.1 Consensus size: 119
44111907 ACCCAAGTAT
* * *
44111917 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCAGATATAGT
* * * *
44111981 CACTAGTGTGAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
66 AACTA-TGAGAATACCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGC
*
44112036 CTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGCCTTCGGGACTTAGCCCAGATAT
1 CTTCGGGACTTAGCCCGGATATAGC-A--ACTCGCACAAATGCCTTCGGGACTTAGCCCAGATAT
*
44112101 AGTAACT-TGCAGAAATACCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
63 AGTAACTATG-AG-AATACCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGC
44112159 CTTCGGGACTTAGC
1 CTTCGGGACTTAGC
44112173 GGATATCATC
Statistics
Matches: 122, Mismatches: 9, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
119 12 0.10
120 10 0.08
121 3 0.02
122 1 0.01
123 96 0.79
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (119 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCAGATATAGT
AACTATGAGAATACCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGC
Found at i:44116070 original size:40 final size:40
Alignment explanation
Indices: 44116015--44116235 Score: 304
Period size: 40 Copynumber: 5.5 Consensus size: 40
44116005 TATTCGGATG
44116015 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
44116055 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAGTAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCA--AGTTACT
* * *
44116097 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** * *
44116137 ATATCCGGGCTAAGTCCCGAAGGCA-TT-CACTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
44116175 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
44116215 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
44116236 ATACTTGGGT
Statistics
Matches: 163, Mismatches: 14, Indels: 9
0.88 0.08 0.05
Matches are distributed among these distances:
38 33 0.20
39 17 0.10
40 75 0.46
42 38 0.23
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:44116217 original size:78 final size:81
Alignment explanation
Indices: 44116015--44116235 Score: 317
Period size: 82 Copynumber: 2.8 Consensus size: 81
44116005 TATTCGGATG
*
44116015 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTGCTATATCCGGGCTAAGTCCCGAAGGCA
* *
44116080 TTTGTGCAGTAGTTACT
66 -TTGTGCACTAGTGACT
* *
44116097 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTCCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTG-CTATATCCGGGCTAAGTCCCGAAGGC
44116161 A-T-T-CACTAGTGACT
65 ATTGTGCACTAGTGACT
* * *
44116175 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTGCTATATCCGGGCTAAGTCCCGAAG
44116236 ATACTTGGGT
Statistics
Matches: 128, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
77 14 0.11
78 49 0.38
79 3 0.02
80 1 0.01
81 1 0.01
82 60 0.47
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (81 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTGCTATATCCGGGCTAAGTCCCGAAGGCA
TTGTGCACTAGTGACT
Found at i:44127340 original size:20 final size:20
Alignment explanation
Indices: 44127315--44127380 Score: 57
Period size: 20 Copynumber: 3.3 Consensus size: 20
44127305 TAACTAGGCA
44127315 TCCGAGCTCATTGAGTTGAG
1 TCCGAGCTCATTGAGTTGAG
* *
44127335 TCCGAGTTCACTT-A-TGGA-
1 TCCGAGCTCA-TTGAGTTGAG
*
44127353 TACGAGAGCTCATTGAGTTGAG
1 T-C-CGAGCTCATTGAGTTGAG
44127375 TCCGAG
1 TCCGAG
44127381 TTCGCTTATG
Statistics
Matches: 34, Mismatches: 6, Indels: 12
0.65 0.12 0.23
Matches are distributed among these distances:
18 1 0.03
19 6 0.18
20 20 0.59
21 6 0.18
22 1 0.03
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.29
Consensus pattern (20 bp):
TCCGAGCTCATTGAGTTGAG
Found at i:44130220 original size:18 final size:17
Alignment explanation
Indices: 44130187--44130220 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
44130177 TGAGTGAATC
*
44130187 TCGTAGGCTTTTTTCTT
1 TCGTAGGCTATTTTCTT
44130204 TCGTAGGCCTATTTTCT
1 TCGTAGG-CTATTTTCT
44130221 ATAAGCAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.09, C:0.21, G:0.18, T:0.53
Consensus pattern (17 bp):
TCGTAGGCTATTTTCTT
Found at i:44137651 original size:29 final size:29
Alignment explanation
Indices: 44137618--44137778 Score: 259
Period size: 29 Copynumber: 5.6 Consensus size: 29
44137608 GTGACGAGAT
44137618 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
44137647 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
44137676 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
44137705 TGGCACTAAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
** *
44137734 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* **
44137763 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
44137779 AGTTCGGAGG
Statistics
Matches: 123, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 123 1.00
ACGTcount: A:0.27, C:0.15, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:44144952 original size:29 final size:29
Alignment explanation
Indices: 44144919--44145079 Score: 259
Period size: 29 Copynumber: 5.6 Consensus size: 29
44144909 GTGACGAGAT
44144919 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
44144948 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
44144977 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
44145006 TGGCACTAAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
** *
44145035 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* **
44145064 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
44145080 AGTTCGGAGG
Statistics
Matches: 123, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 123 1.00
ACGTcount: A:0.27, C:0.15, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:44157149 original size:46 final size:46
Alignment explanation
Indices: 44157099--44157274 Score: 218
Period size: 46 Copynumber: 3.8 Consensus size: 46
44157089 TGGTTGAGCA
44157099 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
44157145 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
44157190 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
44157238 -CTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
44157275 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 8, Indels: 20
0.80 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 4 0.04
46 63 0.56
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:44157255 original size:93 final size:93
Alignment explanation
Indices: 44157096--44157266 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
44157086 GGATGGTTGA
*
44157096 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
44157161 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
44157189 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CTCGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTC-CGAACTCGTTGAG
44157253 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
44157267 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 1 0.01
93 74 0.99
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:44169344 original size:80 final size:80
Alignment explanation
Indices: 44169260--44169408 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
44169250 TATGGTAACC
* * * *
44169260 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
44169324 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
44169340 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
44169405 CCGG
66 CCGG
44169409 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:44169350 original size:40 final size:38
Alignment explanation
Indices: 44169301--44169408 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
44169291 ATCACGATTT
*
44169301 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
44169341 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
44169381 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
44169409 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:44177461 original size:80 final size:80
Alignment explanation
Indices: 44177377--44177525 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
44177367 TATGGTAACC
* * * *
44177377 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
44177441 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
44177457 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
44177522 CCGG
66 CCGG
44177526 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:44177467 original size:40 final size:38
Alignment explanation
Indices: 44177418--44177525 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
44177408 ATCACGATTT
*
44177418 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
44177458 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
44177498 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
44177526 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:44182244 original size:46 final size:46
Alignment explanation
Indices: 44182177--44182350 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
44182167 TGTAACCCGC
*
44182177 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
44182223 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * * *
44182273 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGAC-ATCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
44182315 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
44182351 ATGCTCAACC
Statistics
Matches: 110, Mismatches: 9, Indels: 19
0.80 0.07 0.14
Matches are distributed among these distances:
41 1 0.01
42 3 0.03
43 1 0.01
44 3 0.03
45 28 0.25
46 35 0.32
47 28 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:44182343 original size:92 final size:93
Alignment explanation
Indices: 44182185--44182354 Score: 306
Period size: 92 Copynumber: 1.8 Consensus size: 93
44182175 GCCCATAAGT
* *
44182185 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGATCGCATCCATAAGTGAACTCGGACTCAACTCAA
44182250 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
44182278 GAACTCGGACTCAACTCAACGAGTTCGGAC-ATCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGATCGCATCCATAAGTGAACTCGGACTCAACTCAA
44182342 CGAGTTCGGATGC
66 CGAGTTCGGATGC
44182355 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 46 0.62
93 28 0.38
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGATCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:44184759 original size:30 final size:30
Alignment explanation
Indices: 44184715--44184803 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
44184705 CAAAGATAAC
*
44184715 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCGGAATAAAGAAATCCAAGATA
*
44184744 GAGAAACCCGGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGGAATAAAGAAATCCAAG-ATA
* * *
44184774 AAGAGATCCAGG-ATAAAGAAACCCAAGATA
1 AAGA-AACCCGGAATAAAGAAATCCAAGATA
44184804 CGATACTATG
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
29 9 0.18
30 34 0.68
31 7 0.14
ACGTcount: A:0.56, C:0.16, G:0.18, T:0.10
Consensus pattern (30 bp):
AAGAAACCCGGAATAAAGAAATCCAAGATA
Found at i:44184763 original size:15 final size:14
Alignment explanation
Indices: 44184715--44184797 Score: 58
Period size: 15 Copynumber: 5.6 Consensus size: 14
44184705 CAAAGATAAC
*
44184715 AAGAAAACCGAATA
1 AAGAAACCCGAATA
* *
44184729 AAGAAATCCAAGATA
1 AAGAAACCCGA-ATA
*
44184744 GAGAAACCCGGAATA
1 AAGAAACCC-GAATA
*
44184759 AAGAAATCCAGAATA
1 AAGAAA-CCCGAATA
* * *
44184774 AAGAGATCCAGGATA
1 AAGA-AACCCGAATA
44184789 AAGAAACCC
1 AAGAAACCC
44184798 AAGATACGAT
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
14 12 0.22
15 38 0.70
16 4 0.07
ACGTcount: A:0.55, C:0.17, G:0.18, T:0.10
Consensus pattern (14 bp):
AAGAAACCCGAATA
Found at i:44184803 original size:15 final size:15
Alignment explanation
Indices: 44184726--44184803 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
44184716 AGAAAACCGA
44184726 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
44184741 ATAGAGAAA-CCCGG
1 ATAAAGAAATCCAAG
44184755 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
44184770 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
44184786 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
44184801 ATA
1 ATA
44184804 CGATACTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 3 0.06
15 44 0.88
16 3 0.06
ACGTcount: A:0.55, C:0.15, G:0.18, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:44187859 original size:93 final size:93
Alignment explanation
Indices: 44187747--44187917 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
44187737 GCCCATAAGT
* *
44187747 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
44187812 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
44187840 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
44187905 CGAGTTCGGATGC
66 CGAGTTCGGATGC
44187918 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:44187914 original size:46 final size:46
Alignment explanation
Indices: 44187739--44187914 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
44187729 TGTAACCCGC
* * *
44187739 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
44187785 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
44187835 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
44187878 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
44187915 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:44189340 original size:50 final size:50
Alignment explanation
Indices: 44189269--44189368 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
44189259 ATCAAGAAGA
44189269 AAAAGAACCCATAGGTGAAGGGGGTCTTGTATCAGATGCACAAAAACAAG
1 AAAAGAACCCATAGGTGAAGGGGGTCTTGTATCAGATGCACAAAAACAAG
44189319 AAAAGAACCCATAGGTGAAGGGGGTCTTGTATCAGATGCACAAAAACAAG
1 AAAAGAACCCATAGGTGAAGGGGGTCTTGTATCAGATGCACAAAAACAAG
44189369 GAAATTTTAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.42, C:0.16, G:0.26, T:0.16
Consensus pattern (50 bp):
AAAAGAACCCATAGGTGAAGGGGGTCTTGTATCAGATGCACAAAAACAAG
Found at i:44194377 original size:20 final size:20
Alignment explanation
Indices: 44194352--44194393 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
44194342 TCCTTCCTTT
44194352 TATTTTT-AGTAATGGTCGAA
1 TATTTTTGA-TAATGGTCGAA
44194372 TATTTTTGTATAATGGTCGAA
1 TATTTTTG-ATAATGGTCGAA
44194393 T
1 T
44194394 CTATCATGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 7 0.35
21 12 0.60
22 1 0.05
ACGTcount: A:0.29, C:0.05, G:0.19, T:0.48
Consensus pattern (20 bp):
TATTTTTGATAATGGTCGAA
Found at i:44197371 original size:2 final size:2
Alignment explanation
Indices: 44197364--44197393 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
44197354 ATAGCCGAAC
44197364 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
44197394 CAATTATGCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:44198347 original size:28 final size:28
Alignment explanation
Indices: 44198316--44198385 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
44198306 ATATTTTCTT
*
44198316 TCGCATACTTAGTGCTCGA-TAATCAAAC
1 TCGCATACTTAGTGCTC-ATTAACCAAAC
*
44198344 TCGCACACTTAGTGCTCATTAACCAAAC
1 TCGCATACTTAGTGCTCATTAACCAAAC
*
44198372 TCGCATGCTTAGTG
1 TCGCATACTTAGTG
44198386 AAATTTTCAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
27 1 0.03
28 36 0.97
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.29
Consensus pattern (28 bp):
TCGCATACTTAGTGCTCATTAACCAAAC
Found at i:44202888 original size:16 final size:16
Alignment explanation
Indices: 44202869--44202907 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
44202859 AACGACAAAG
*
44202869 GCCGAAAAGTTGAAAA
1 GCCGAAAAGGTGAAAA
44202885 GCCGAAAAGGTGAAAA
1 GCCGAAAAGGTGAAAA
44202901 GCC-AAAA
1 GCCGAAAA
44202908 CGTGGGTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 4 0.18
16 18 0.82
ACGTcount: A:0.51, C:0.15, G:0.26, T:0.08
Consensus pattern (16 bp):
GCCGAAAAGGTGAAAA
Found at i:44204711 original size:12 final size:12
Alignment explanation
Indices: 44204693--44204722 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
44204683 TAGATGTACT
44204693 CGTGGTAGAGGC
1 CGTGGTAGAGGC
*
44204705 TGTGGTAGAGGC
1 CGTGGTAGAGGC
44204717 CGTGGT
1 CGTGGT
44204723 GGTGTTCGGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.13, C:0.13, G:0.50, T:0.23
Consensus pattern (12 bp):
CGTGGTAGAGGC
Found at i:44206939 original size:45 final size:45
Alignment explanation
Indices: 44206880--44206994 Score: 142
Period size: 45 Copynumber: 2.6 Consensus size: 45
44206870 CGATATCATT
* * * * *
44206880 TCACCGGTACTATAGCTTGCTATGCTCGAAA-GCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTC-AAAGGCCCGAAGAGTATC
*
44206925 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAAGAGTATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAAGAGTATC
* *
44206970 TCACCGGCATCATAGCCTACTAGGC
1 TCACCGGCATTATAGCCTGCTAGGC
44206995 ACGAAGGTCC
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 3 0.05
45 58 0.95
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAAGAGTATC
Found at i:44207007 original size:45 final size:45
Alignment explanation
Indices: 44206911--44207007 Score: 131
Period size: 45 Copynumber: 2.2 Consensus size: 45
44206901 ATGCTCGAAA
* * * *
44206911 GCCCGAATAGTATCTCACCGGCATTATAGCCTGCTAGGCTCAAAG
1 GCCCGAAGAGTATCTCACCGGCATCATAGCCTACTAGGCACAAAG
* *
44206956 GCCCGAAGAGTATTTCACCGGCATCATAGCCTACTAGGCACGAAG
1 GCCCGAAGAGTATCTCACCGGCATCATAGCCTACTAGGCACAAAG
*
44207001 GTCCGAA
1 GCCCGAA
44207008 TACACATCAC
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.28, C:0.29, G:0.24, T:0.20
Consensus pattern (45 bp):
GCCCGAAGAGTATCTCACCGGCATCATAGCCTACTAGGCACAAAG
Found at i:44207041 original size:43 final size:43
Alignment explanation
Indices: 44206938--44207293 Score: 507
Period size: 43 Copynumber: 8.2 Consensus size: 43
44206928 CCGGCATTAT
* * * * **
44206938 AGCCTGCTAGGCTCAAAGGCCCGAAGAGTATTTCACCGGCATC-A
1 AGCCTGCTAGGCACGAAGGCCCGAATA-CACATCACCGGCA-CGA
* * * *
44206982 TAGCCTACTAGGCACGAAGGTCCGAATACACATCACCAGTACGA
1 -AGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGA
* *
44207026 AGCCTGCTAGACACGAAGGCCCGAATACACATTACCGGCACGA
1 AGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGA
*
44207069 AGCCTGCTAGGCACGAAGGCCTGAATACACATCACCGGCACGA
1 AGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGA
*
44207112 AGCCTGTTAGGCACGAAGGCCCGAATACACATCACCGGCACGA
1 AGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGA
*
44207155 AGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACAA
1 AGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGA
*
44207198 AGCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACGA
1 AGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGA
* * *
44207241 AGCCTGCTAGGTACGAAGGCCTGAATACACAACACCGGCACGA
1 AGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGA
44207284 AGCCTGCTAG
1 AGCCTGCTAG
44207294 ATTTAACCCG
Statistics
Matches: 281, Mismatches: 29, Indels: 4
0.89 0.09 0.01
Matches are distributed among these distances:
43 250 0.89
44 9 0.03
45 22 0.08
ACGTcount: A:0.31, C:0.32, G:0.24, T:0.13
Consensus pattern (43 bp):
AGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGA
Found at i:44209151 original size:40 final size:40
Alignment explanation
Indices: 44209092--44209260 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
44209082 CGGGACTTTA
* * *
44209092 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
44209132 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
44209172 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
44209212 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
44209252 CCCGGATAT
1 CCCGGATAT
44209261 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:44217186 original size:40 final size:40
Alignment explanation
Indices: 44217127--44217295 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
44217117 CGGGACTTTA
* * *
44217127 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
44217167 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
44217207 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
44217247 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
44217287 CCCGGATAT
1 CCCGGATAT
44217296 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:44226368 original size:8 final size:8
Alignment explanation
Indices: 44226355--44226390 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
44226345 GACAAAGGCT
44226355 GAAAAGCC
1 GAAAAGCC
44226363 GAAAAGCC
1 GAAAAGCC
**
44226371 GAAAAGGT
1 GAAAAGCC
44226379 GAAAAGCC
1 GAAAAGCC
44226387 GAAA
1 GAAA
44226391 TATGGGTTCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.53, C:0.17, G:0.28, T:0.03
Consensus pattern (8 bp):
GAAAAGCC
Found at i:44227032 original size:35 final size:35
Alignment explanation
Indices: 44226986--44227057 Score: 128
Period size: 35 Copynumber: 2.1 Consensus size: 35
44226976 TACGACTTGG
44226986 TGTGTAGGGTTGGG-TGGGTCGACTTTATCCCCACA
1 TGTGTAGGGTTGGGCT-GGTCGACTTTATCCCCACA
44227021 TGTGTAGGGTTGGGCTGGTCGACTTTATCCCCACA
1 TGTGTAGGGTTGGGCTGGTCGACTTTATCCCCACA
44227056 TG
1 TG
44227058 GTATGTAGGG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
35 35 0.97
36 1 0.03
ACGTcount: A:0.14, C:0.21, G:0.33, T:0.32
Consensus pattern (35 bp):
TGTGTAGGGTTGGGCTGGTCGACTTTATCCCCACA
Found at i:44239261 original size:128 final size:127
Alignment explanation
Indices: 44238998--44239330 Score: 483
Period size: 128 Copynumber: 2.6 Consensus size: 127
44238988 TTTATTCAAA
* *
44238998 AAAAATTCAAAACAAAGGTAATGTTT-GATGTTTGG-AAATTCGAGAAATTGTGCCCTAACGTGC
1 AAAACTTCAAAAC-AAGGTAAT-TTTCTATGTTTGGAAAATTCGAGAAATTGTGCCCTAACGTGC
* *
44239061 TGGGATTCGATTTTTCGTTTGTCGAAATAACCAAATACCCCTTTAAAATTTCATCCGTGTTTTC
64 TGGGATTCGATTTTCCGTTTGTCCAAATAACCAAATACCCCTTTAAAATTTCATCCGTGTTTTC
*
44239125 AAAACTTCAAAACAAGGTAATTTTCTATGTTTGGTAAAATTTGAGAAATTGTGCCCTAACGTGCT
1 AAAACTTCAAAACAAGGTAATTTTCTATGTTTGG-AAAATTCGAGAAATTGTGCCCTAACGTGCT
* *
44239190 GGGATTTGATTTTCCGTTTGTCCAAATAACCAAATATCCCTTTAAAATTTCATCCGTGTTTTC
65 GGGATTCGATTTTCCGTTTGTCCAAATAACCAAATACCCCTTTAAAATTTCATCCGTGTTTTC
* * * * * *
44239253 AAAACTTCAAAACAAAGCAATGTTCTATGTTT-GAAAATCCGAGAAATTGTGCCCTAACATGTTG
1 AAAACTTCAAAACAAGGTAATTTTCTATGTTTGGAAAATTCGAGAAATTGTGCCCTAACGTGCTG
*
44239317 GGTTTCGACTTTTC
66 GGATTCGA-TTTTC
44239331 GTTGGACAAA
Statistics
Matches: 186, Mismatches: 16, Indels: 8
0.89 0.08 0.04
Matches are distributed among these distances:
125 3 0.02
126 49 0.26
127 18 0.10
128 116 0.62
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Consensus pattern (127 bp):
AAAACTTCAAAACAAGGTAATTTTCTATGTTTGGAAAATTCGAGAAATTGTGCCCTAACGTGCTG
GGATTCGATTTTCCGTTTGTCCAAATAACCAAATACCCCTTTAAAATTTCATCCGTGTTTTC
Found at i:44251596 original size:40 final size:40
Alignment explanation
Indices: 44251486--44251597 Score: 152
Period size: 40 Copynumber: 2.8 Consensus size: 40
44251476 TGAAATTTAT
* * * * *
44251486 ATCCGGGTTAAGACCCGAAGGAAATTGTGCTAGTAGCTAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGCTAA
* * *
44251526 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGCTAA
44251566 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAA
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAA
44251598 ATCGTGATAT
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 63 1.00
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGCTAA
Found at i:44251610 original size:40 final size:39
Alignment explanation
Indices: 44251442--44251612 Score: 150
Period size: 40 Copynumber: 4.3 Consensus size: 39
44251432 AGAAATTGAA
* *
44251442 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * * *
44251482 TTATATCCGGGTTAAGACCCGAAGGAAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
44251522 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
44251562 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
44251602 TGATATCCGGG
1 TGATATCCGGG
44251613 TAAAGTCCCG
Statistics
Matches: 105, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 93 0.89
41 2 0.02
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:44255307 original size:47 final size:46
Alignment explanation
Indices: 44255256--44255378 Score: 149
Period size: 47 Copynumber: 2.6 Consensus size: 46
44255246 GAGGCCGATG
* * * *
44255256 CATGTCCCAGACATGTCTTACACTGGCACTCGT-CTCTGTGCCGATAC
1 CATGTCCCAGACATGTCTTACACTGGCACTCATAATGTG-GCCAAT-C
* * *
44255303 CATGTCCCAGACATGGTCTTATACTAGCACTCATAATGTGGCCAATG
1 CATGTCCCAGACAT-GTCTTACACTGGCACTCATAATGTGGCCAATC
44255350 CATGTCCCAGACATGTCTTACACTGGCAC
1 CATGTCCCAGACATGTCTTACACTGGCAC
44255379 ACAAGAAATC
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
46 13 0.20
47 28 0.43
48 21 0.32
49 3 0.05
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.27
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCACTCATAATGTGGCCAATC
Found at i:44257353 original size:45 final size:45
Alignment explanation
Indices: 44257284--44257548 Score: 266
Period size: 45 Copynumber: 5.9 Consensus size: 45
44257274 TATAAATAAA
** * * *
44257284 CAGATCTTATCTCTTTGAATTTGCAATGGAGCAGATTGAAGATAG
1 CAGATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAG
* *
44257329 CAGATCTTATCTCTCTAAAGTTGCAGTGGAGTAGATTGAAGATAG
1 CAGATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAG
* *
44257374 CAGATCTTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAGATAG
1 CAGATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAG
** *
44257419 CAGATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATCAAAGCTA-
1 CAGATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAG
* ** * * * * *
44257463 C-CATCCTTATCTTTCTGAAGTTGCAGTAGAGCAAGA-TAAAAATAAA
1 CAGAT-CTTATCTCCCTAAAGTTGCAGTGGAGC-AGATTGAAGAT-AG
* * * *
44257509 TAAACCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAA
1 CAGATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAA
44257549 ATTACCAGTT
Statistics
Matches: 185, Mismatches: 29, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
43 2 0.01
44 28 0.15
45 128 0.69
46 26 0.14
47 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (45 bp):
CAGATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAG
Found at i:44257401 original size:142 final size:140
Alignment explanation
Indices: 44257146--44257410 Score: 336
Period size: 142 Copynumber: 1.9 Consensus size: 140
44257136 ATCATGGAAA
* *
44257146 ATCTTATCTCTCTAAAGTGGCAGTGGAGCAGATTGAAGCCATAAGTCTTATCTCCCTGAAGTTGC
1 ATCTTATCTCTCTAAAGTGGCAATGGAGCAGATTGAAG-CATAAGTCTTATCTCCCTAAAGTTGC
* *
44257211 AGCAGAGCAGACTAAAGATAGCGAATCTTATTTCCCTGAAGTTACAGTGGAACAGATTGAAGCTA
65 AGCAGAGCAGACTAAAGATAGCGAATCTTATCTCCCTAAAGTTACAGTGGAACAGATTGAAGCTA
44257276 TAAATAAACAG
130 TAAATAAACAG
* * * * *
44257287 ATCTTATCTCTTTGAATTTGCAATGGAGCAGATTGAAG-ATAGCAGATCTTATCTCTCTAAAGTT
1 ATCTTATCTCTCTAAAGTGGCAATGGAGCAGATTGAAGCATA--AG-TCTTATCTCCCTAAAGTT
** * * * *
44257351 GCAGTGGAGTAGATTGAAGATAGC-AGATCTTATCTCCCTAAAGTTACAGTGGAGCAGATT
63 GCAGCAGAGCAGACTAAAGATAGCGA-ATCTTATCTCCCTAAAGTTACAGTGGAACAGATT
44257411 AAAGATAGCA
Statistics
Matches: 105, Mismatches: 15, Indels: 7
0.83 0.12 0.06
Matches are distributed among these distances:
139 3 0.03
141 36 0.34
142 66 0.63
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (140 bp):
ATCTTATCTCTCTAAAGTGGCAATGGAGCAGATTGAAGCATAAGTCTTATCTCCCTAAAGTTGCA
GCAGAGCAGACTAAAGATAGCGAATCTTATCTCCCTAAAGTTACAGTGGAACAGATTGAAGCTAT
AAATAAACAG
Found at i:44259435 original size:2 final size:2
Alignment explanation
Indices: 44259428--44259457 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
44259418 GAATTTATTC
44259428 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
44259458 TTCTTTTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:44260410 original size:126 final size:126
Alignment explanation
Indices: 44260173--44260485 Score: 448
Period size: 126 Copynumber: 2.5 Consensus size: 126
44260163 CGAAAATTTC
* * *
44260173 TCAAAACAAAAGCAATGTT-TGATGATTGGAAATTAGAGAAATCGTGCCCTAACGTGCTGGGATT
1 TCAAAAC-AAGGCAATGTTCT-ATGTTTGGAAATTCGAGAAATCGTGCCCTAACGTGCTGGGATT
* *
44260237 CGGTTTTCCGTTTGTCCAAATAACCAAATACCCCATTAAAATCTCGTCTGTGTCTTCAAAACT
64 CGATTTTCCGTTTGTCCAAATAACCAAATACCCCATTAAAATCTCGTCCGTGTCTTCAAAACT
*
44260300 TCAAAACAAGGCAATGTTCTATGTTTAGAAATTCGAGAAATCGTGCCCTAACGTGCTGGGATTCG
1 TCAAAACAAGGCAATGTTCTATGTTTGGAAATTCGAGAAATCGTGCCCTAACGTGCTGGGATTCG
* * * * * *
44260365 ATTTTCTGTTTGTCTAAATAACCAAATATCCCTTTAAAATTTCGTCCGTGTTTTCAAAACT
66 ATTTTCCGTTTGTCCAAATAACCAAATACCCCATTAAAATCTCGTCCGTGTCTTCAAAACT
* * ** *
44260426 TCAAAACAAGGCAATGTTCTATGTTTGGAAATCCGAGGAATTATGCCCTAACGTGTTGGG
1 TCAAAACAAGGCAATGTTCTATGTTTGGAAATTCGAGAAATCGTGCCCTAACGTGCTGGG
44260486 TTTGGGTTTT
Statistics
Matches: 167, Mismatches: 18, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
126 159 0.95
127 8 0.05
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (126 bp):
TCAAAACAAGGCAATGTTCTATGTTTGGAAATTCGAGAAATCGTGCCCTAACGTGCTGGGATTCG
ATTTTCCGTTTGTCCAAATAACCAAATACCCCATTAAAATCTCGTCCGTGTCTTCAAAACT
Found at i:44264952 original size:46 final size:46
Alignment explanation
Indices: 44264819--44265039 Score: 179
Period size: 46 Copynumber: 4.8 Consensus size: 46
44264809 AGGGTATAAT
* *
44264819 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-CATCCATCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTACAT-CTTGA
* * *
44264865 ACTCGATGCCATGCCCCAGACATGGTCTTACACTGAC-ACATCTTGTA
1 GC-CGATGCCATGTCCCAGACATGGTCTTACACTGGCTACATCTTG-A
* *
44264912 GCCGATG-CATGTCCTAGACAT-GTCTTACACTGGCTTACATCTCGA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TACATCTTGA
* * * * **
44264957 GGCCGA--CACATGTCCCAGACAT-TTCTTACACTAGCTCTCGTCTCAA
1 -GCCGATGC-CATGTCCCAGACATGGTCTTACACTGGCT-ACATCTTGA
* *
44265003 TG-CGATACCATGTCCCAAACATGGTCTTACACTGGCT
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT
44265040 CTCATAATGT
Statistics
Matches: 143, Mismatches: 20, Indels: 23
0.77 0.11 0.12
Matches are distributed among these distances:
44 12 0.08
45 17 0.12
46 64 0.45
47 50 0.35
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.26
Consensus pattern (46 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTACATCTTGA
Found at i:44266842 original size:77 final size:76
Alignment explanation
Indices: 44266750--44266901 Score: 234
Period size: 77 Copynumber: 2.0 Consensus size: 76
44266740 GAGTAAGAAA
* * *
44266750 GTAGAAAATTTTGAGGAAT-AAAAATTTTATAAAATGTTATTATCATATATAAGTATGGGTGTTC
1 GTAGAAAATTTTGAGGAATAAAAAATTTTATAAAATGTTATTATC--ATACAAGTAAGGGTATTC
44266814 AGTCGGTTAACTG
64 AGTCGGTTAACTG
44266827 GTAGAAAATTTTGAGGAATAAAAAAATTTTATAAAATGTTATTATCATACAAGTAAGGGTATTCA
1 GTAGAAAATTTTGAGGAAT-AAAAAATTTTATAAAATGTTATTATCATACAAGTAAGGGTATTCA
*
44266892 GTTGGTTAAC
65 GTCGGTTAAC
44266902 CGACCGGCTA
Statistics
Matches: 69, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
77 44 0.64
79 25 0.36
ACGTcount: A:0.40, C:0.05, G:0.18, T:0.36
Consensus pattern (76 bp):
GTAGAAAATTTTGAGGAATAAAAAATTTTATAAAATGTTATTATCATACAAGTAAGGGTATTCAG
TCGGTTAACTG
Found at i:44267065 original size:9 final size:9
Alignment explanation
Indices: 44267051--44267101 Score: 59
Period size: 9 Copynumber: 5.7 Consensus size: 9
44267041 AATAAATATA
44267051 GAATTAACC
1 GAATTAACC
*
44267060 GAATTAATC
1 GAATTAACC
*
44267069 GAATTACCC
1 GAATTAACC
44267078 GAATT-ACTC
1 GAATTAAC-C
*
44267087 GAATTAACT
1 GAATTAACC
44267096 GAATTA
1 GAATTA
44267102 TTTGTATAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
8 1 0.03
9 32 0.91
10 2 0.06
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (9 bp):
GAATTAACC
Found at i:44267074 original size:18 final size:18
Alignment explanation
Indices: 44267051--44267101 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
44267041 AATAAATATA
44267051 GAATTAACCGAATTAATC
1 GAATTAACCGAATTAATC
* *
44267069 GAATTACCCGAATTACTC
1 GAATTAACCGAATTAATC
*
44267087 GAATTAACTGAATTA
1 GAATTAACCGAATTA
44267102 TTTGTATAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (18 bp):
GAATTAACCGAATTAATC
Found at i:44267416 original size:22 final size:22
Alignment explanation
Indices: 44267389--44267432 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
44267379 ATTAACCAAC
44267389 CAATTAACCGAATTTTTTCGAT
1 CAATTAACCGAATTTTTTCGAT
*
44267411 CAATTAATCGAATTTTTTCGAT
1 CAATTAACCGAATTTTTTCGAT
44267433 TTTACCTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.16, G:0.09, T:0.43
Consensus pattern (22 bp):
CAATTAACCGAATTTTTTCGAT
Found at i:44274539 original size:10 final size:10
Alignment explanation
Indices: 44274502--44274545 Score: 56
Period size: 10 Copynumber: 4.6 Consensus size: 10
44274492 TATTAAAAAC
44274502 GAGAGAG-TT
1 GAGAGAGTTT
44274511 GAGAGA-TTT
1 GAGAGAGTTT
*
44274520 GAGAGGGTTT
1 GAGAGAGTTT
*
44274530 AAGAGAGTTT
1 GAGAGAGTTT
44274540 GAGAGA
1 GAGAGA
44274546 AAGATGTGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
9 13 0.45
10 16 0.55
ACGTcount: A:0.34, C:0.00, G:0.41, T:0.25
Consensus pattern (10 bp):
GAGAGAGTTT
Found at i:44274980 original size:25 final size:26
Alignment explanation
Indices: 44274952--44275005 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 26
44274942 GTTAGGGCCA
44274952 AAAGGT-GAAGCTCAAATTTTAGATC
1 AAAGGTCGAAGCTCAAATTTTAGATC
* *
44274977 AAA-GTCTAAGTTCAAATTTTAGATC
1 AAAGGTCGAAGCTCAAATTTTAGATC
44275002 AAAG
1 AAAG
44275006 TCTAAGTTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 2 0.08
25 23 0.92
ACGTcount: A:0.43, C:0.11, G:0.17, T:0.30
Consensus pattern (26 bp):
AAAGGTCGAAGCTCAAATTTTAGATC
Found at i:44275006 original size:25 final size:25
Alignment explanation
Indices: 44274963--44275016 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
44274953 AAGGTGAAGC
44274963 TCAAATTTTAGATCAAAGTCTAAGT
1 TCAAATTTTAGATCAAAGTCTAAGT
44274988 TCAAATTTTAGATCAAAGTCTAAGT
1 TCAAATTTTAGATCAAAGTCTAAGT
44275013 TCAA
1 TCAA
44275017 TTGAAACTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.41, C:0.13, G:0.11, T:0.35
Consensus pattern (25 bp):
TCAAATTTTAGATCAAAGTCTAAGT
Found at i:44277619 original size:85 final size:84
Alignment explanation
Indices: 44277490--44277644 Score: 204
Period size: 85 Copynumber: 1.8 Consensus size: 84
44277480 TATCGTTCCA
* ** *
44277490 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCGTACCGATGCCAATAGCCCAGCTATGGTC
1 ATGCCATATCCCAGATATGGTCTTACACGTAATCTAATACCGATGCC-ATAGCCCAGATATGGTC
44277555 CTACACAAAGTCTTATATCG
65 CTACACAAAGTCTTATATCG
* * * *
44277575 ATGCCATATCCTAGATATGGTCTTACACG-AAGTCTAATATCGATGCCATATCCCAGATGTGGTC
1 ATGCCATATCCCAGATATGGTCTTACACGTAA-TCTAATACCGATGCCATAGCCCAGATATGGTC
*
44277639 TTACAC
65 CTACAC
44277645 GTAATCTCAG
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
84 21 0.35
85 39 0.65
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (84 bp):
ATGCCATATCCCAGATATGGTCTTACACGTAATCTAATACCGATGCCATAGCCCAGATATGGTCC
TACACAAAGTCTTATATCG
Found at i:44277645 original size:42 final size:42
Alignment explanation
Indices: 44277490--44277645 Score: 188
Period size: 42 Copynumber: 3.7 Consensus size: 42
44277480 TATCGTTCCA
* ** *
44277490 ATGCCATATCCCAGATATGGTCTTACATGTAA-TCTCGTACCG
1 ATGCCATATCCCAGATATGGTCTTACACG-AAGTCTAATATCG
* * * * *
44277532 ATGCCAATAGCCCAGCTATGGTCCTACACAAAGTCTTATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAGTCTAATATCG
*
44277575 ATGCCATATCCTAGATATGGTCTTACACGAAGTCTAATATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAGTCTAATATCG
*
44277617 ATGCCATATCCCAGATGTGGTCTTACACG
1 ATGCCATATCCCAGATATGGTCTTACACG
44277646 TAATCTCAGT
Statistics
Matches: 96, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
42 65 0.68
43 31 0.32
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAGTCTAATATCG
Found at i:44281250 original size:31 final size:31
Alignment explanation
Indices: 44281206--44281291 Score: 147
Period size: 31 Copynumber: 2.8 Consensus size: 31
44281196 TCAATCTCAG
*
44281206 CATAT-ACTAGGCCGAAGCCTTTACATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
*
44281236 CATATCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
44281267 CATATCACTGGGCCGAAGCCTTTAC
1 CATATCACTGGGCCGAAGCCTTTAC
44281292 TGTAATAGTA
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
30 5 0.10
31 47 0.90
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.31
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTACATTATT
Found at i:44281534 original size:25 final size:25
Alignment explanation
Indices: 44281508--44281603 Score: 113
Period size: 26 Copynumber: 3.8 Consensus size: 25
44281498 CCTTTTTAAT
* *
44281508 AACTAGGGCAAAAGCCCTTTTTGATA
1 AACTGGGGC-AAAGCCCTTTTCGATA
*
44281534 AACTGGGGCAAAAGCCCTTTTCGGTA
1 AACTGGGGC-AAAGCCCTTTTCGATA
* *
44281560 AACTTGGGCAAAGCCCTTTTCGGT-
1 AACTGGGGCAAAGCCCTTTTCGATA
*
44281584 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
44281604 GCACTTCCTC
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
24 18 0.28
25 15 0.23
26 31 0.48
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:44281537 original size:26 final size:26
Alignment explanation
Indices: 44281498--44281579 Score: 105
Period size: 26 Copynumber: 3.2 Consensus size: 26
44281488 GGAGGCCTAG
*
44281498 CCTTTTTAAT-AACTAGGGCAAAAGC
1 CCTTTTTGATAAACTAGGGCAAAAGC
*
44281523 CCTTTTTGATAAACTGGGGCAAAAGC
1 CCTTTTTGATAAACTAGGGCAAAAGC
* * *
44281549 CCTTTTCGGTAAACTTGGGC-AAAGC
1 CCTTTTTGATAAACTAGGGCAAAAGC
44281574 CCTTTT
1 CCTTTT
44281580 CGGTAACTGG
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
25 20 0.39
26 31 0.61
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (26 bp):
CCTTTTTGATAAACTAGGGCAAAAGC
Found at i:44285845 original size:28 final size:27
Alignment explanation
Indices: 44285813--44285896 Score: 72
Period size: 28 Copynumber: 3.2 Consensus size: 27
44285803 AATTGTGATT
44285813 ACGTGTGTAGTACTAAGTGCAGGCTAC
1 ACGTGTGTAGTACTAAGTGCAGGCTAC
* * *
44285840 AACGTGTATCAG-A-T-GGT-TAGG-T-C
1 -ACGTGTGT-AGTACTAAGTGCAGGCTAC
44285863 ACGTGTGTAGTACTAAGTGCAGGCTAC
1 ACGTGTGTAGTACTAAGTGCAGGCTAC
44285890 TACGTGT
1 -ACGTGT
44285897 ACCGGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.29
Consensus pattern (27 bp):
ACGTGTGTAGTACTAAGTGCAGGCTAC
Found at i:44285931 original size:49 final size:49
Alignment explanation
Indices: 44285765--44286002 Score: 282
Period size: 49 Copynumber: 4.8 Consensus size: 49
44285755 TGAGGTCGCA
* * * *
44285765 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCA-AAAATTGTGATTACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAGATAATTG-G-TCACG
* * **
44285816 TGTGTAGTACTAAGTGCAGGCTACAACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACG
* *
44285866 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCATG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
* * *
44285915 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CTGAATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG-ATAATTGGTCACG
* *
44285964 TGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
44286003 GCTTTGGCTA
Statistics
Matches: 162, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
48 2 0.01
49 81 0.50
50 45 0.28
51 33 0.20
52 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
Found at i:44290323 original size:42 final size:42
Alignment explanation
Indices: 44290206--44290359 Score: 161
Period size: 42 Copynumber: 3.6 Consensus size: 42
44290196 TATCGTTCCA
* * *
44290206 ATGCCATATCCCAGATATGGTCTTACATGTAATGTC--GTATCG
1 ATGCCATATCCTAGATATGGTCTTACAAG-AA-GTCTAATATCG
* * * ** *
44290248 ATGCTAATAGCCCA-ACTATGGTCTTACGCGAAGTCTTATATCG
1 ATGC-CATATCCTAGA-TATGGTCTTACAAGAAGTCTAATATCG
*
44290291 ATGCCATATCCTAGATATGGTTTTACAAGAAGTCTAATATCG
1 ATGCCATATCCTAGATATGGTCTTACAAGAAGTCTAATATCG
44290333 ATGCCATATCCTAGATATGGTCTTACA
1 ATGCCATATCCTAGATATGGTCTTACA
44290360 CGTGATGTCA
Statistics
Matches: 94, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
41 3 0.03
42 62 0.66
43 29 0.31
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCTAGATATGGTCTTACAAGAAGTCTAATATCG
Done.