Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 279 of 378
Found at i:84063160 original size:46 final size:46
Alignment explanation
Indices: 84063017--84063160 Score: 143
Period size: 46 Copynumber: 3.1 Consensus size: 46
84063007 CCCACCCATA
* *
84063017 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TACATC-CT
* * * * *
84063066 --CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCATACATCCT
*
84063110 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCT
84063156 AGTGA
1 AGTGA
84063161 CATGTCACTT
Statistics
Matches: 76, Mismatches: 13, Indels: 15
0.73 0.12 0.14
Matches are distributed among these distances:
44 8 0.11
46 33 0.43
47 31 0.41
49 4 0.05
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCT
Found at i:84066232 original size:61 final size:58
Alignment explanation
Indices: 84066122--84066260 Score: 154
Period size: 61 Copynumber: 2.3 Consensus size: 58
84066112 TTAATTCATA
* * * * *
84066122 TAATAATGATTATATTAAGAATTTTATTAAATTATATAATATTTTATTAAATTGTATT
1 TAATAATAATTATATTAAGAATATGATTAAATTATATAATATTTTATTAAAATATATT
**
84066180 TAATAATAATTATATTAA-AATATGATTAAATTATTGATTTTTATTTTTATTAAAATATATT
1 TAATAATAATTATATTAAGAATATGATTAAATTA-T-A-TAATA-TTTTATTAAAATATATT
* *
84066241 TAACAATAATTTTATTAAGA
1 TAATAATAATTATATTAAGA
84066261 TTTAATAACA
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
57 13 0.19
58 18 0.27
59 1 0.01
60 3 0.04
61 31 0.46
62 1 0.01
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.50
Consensus pattern (58 bp):
TAATAATAATTATATTAAGAATATGATTAAATTATATAATATTTTATTAAAATATATT
Found at i:84066450 original size:16 final size:16
Alignment explanation
Indices: 84066429--84066496 Score: 86
Period size: 16 Copynumber: 4.2 Consensus size: 16
84066419 TGAATTACTG
84066429 ATTACAGCTCTATTTC-
1 ATTACAGCTCTA-TTCA
84066445 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCA
*
84066461 ATTACAGCTTTATTCA
1 ATTACAGCTCTATTCA
*
84066477 ATTACAG-TCCTATTCC
1 ATTACAGCT-CTATTCA
84066493 ATTA
1 ATTA
84066497 TAGTAAACCA
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
15 4 0.09
16 43 0.91
ACGTcount: A:0.29, C:0.24, G:0.06, T:0.41
Consensus pattern (16 bp):
ATTACAGCTCTATTCA
Found at i:84078697 original size:11 final size:10
Alignment explanation
Indices: 84078670--84078710 Score: 55
Period size: 11 Copynumber: 3.9 Consensus size: 10
84078660 GAAATTAGAG
84078670 AATTCTATTT
1 AATTCTATTT
84078680 AATTCTATTCT
1 AATTCTATT-T
*
84078691 TATTCTATTT
1 AATTCTATTT
84078701 AATTTCTATT
1 AA-TTCTATT
84078711 AAATCCATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
10 11 0.41
11 16 0.59
ACGTcount: A:0.27, C:0.12, G:0.00, T:0.61
Consensus pattern (10 bp):
AATTCTATTT
Found at i:84081795 original size:19 final size:19
Alignment explanation
Indices: 84081771--84081809 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
84081761 TAAGCAATAC
84081771 AACAGACAAACTCAATTAT
1 AACAGACAAACTCAATTAT
84081790 AACAGACAAACTCAATTAT
1 AACAGACAAACTCAATTAT
84081809 A
1 A
84081810 CATCAATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.54, C:0.21, G:0.05, T:0.21
Consensus pattern (19 bp):
AACAGACAAACTCAATTAT
Found at i:84082285 original size:45 final size:45
Alignment explanation
Indices: 84082205--84082328 Score: 207
Period size: 45 Copynumber: 2.8 Consensus size: 45
84082195 ATTCATTCAT
* *
84082205 CGGCATT-TCGCCTGCTAGGCTC-GAGGCCCGAATAATATCCCAC
1 CGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATCCCAC
*
84082248 CGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATCTCAC
1 CGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATCCCAC
84082293 CGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
1 CGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
84082329 GTACTGTACA
Statistics
Matches: 76, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
43 7 0.09
44 14 0.18
45 55 0.72
ACGTcount: A:0.26, C:0.31, G:0.23, T:0.21
Consensus pattern (45 bp):
CGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATCCCAC
Found at i:84082808 original size:2 final size:2
Alignment explanation
Indices: 84082796--84082836 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
84082786 TACTTCAAAA
84082796 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
84082837 TCGACTTTCA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:84085902 original size:69 final size:69
Alignment explanation
Indices: 84085817--84086361 Score: 362
Period size: 69 Copynumber: 7.9 Consensus size: 69
84085807 CAAAGAGCCG
* ** *
84085817 CAACCTTCAAAACAATTAGCGAGAGCAAAGCTCCCAACTATCATATTAAGACTCGTAGGCGAAGA
1 CAACCTCCAAAACAATTAGCGAGAGCAAAGCTCCCAACTATCATATTAAGGTTCGCAGGCGAAGA
84085882 G-CA
66 GTCA
* * * * *** * * * *
84085885 GTAACCTCTAAAACAATTAGCGAAAGTAAAGCTCCCTGTTGTCATATTAAAGTTCGTAGGTGAAG
1 -CAACCTCCAAAACAATTAGCGAGAGCAAAGCTCCCAACTATCATATTAAGGTTCGCAGGCGAAG
*
84085950 A-ACTA
65 AGTC-A
* * * * * * *
84085955 CAACTTCCAAAACAGTTAGTGAGGGCAAAGCTCCCAACTATTATATTAAGGTTTGCAGGCGAAAA
1 CAACCTCCAAAACAATTAGCGAGAGCAAAGCTCCCAACTATCATATTAAGGTTCGCAGGCGAAGA
84086020 GTCA
66 GTCA
* * * * * *
84086024 CAACCTCCAAAACAGTTAGTGAGAACAAAGCTCCCAGCTATCATATTAAGGTTCACAGGCAAAGA
1 CAACCTCCAAAACAATTAGCGAGAGCAAAGCTCCCAACTATCATATTAAGGTTCGCAGGCGAAGA
* *
84086089 GCCG
66 GTCA
* ** * * * * * * *
84086093 TAACCTTTAAAAAAATTAGCGAGAGTAAAGCTCTCAGCTATCATATTAAGGTTCACAAGTGAAGA
1 CAACCTCCAAAACAATTAGCGAGAGCAAAGCTCCCAACTATCATATTAAGGTTCGCAGGCGAAGA
*
84086158 GTTA
66 GTCA
** * * * * * * * * *
84086162 CAACCTTTAAAATAGTTAGCGACAACAAAGCTCCCAATTGT-AGTATTAAGGCTCGTAGGTGAAG
1 CAACCTCCAAAACAATTAGCGAGAGCAAAGCTCCCAACTATCA-TATTAAGGTTCGCAGGCGAAG
*
84086226 AGCCA
65 AGTCA
* * * * * * * *
84086231 CAACCTCCATAAA-AATTAACGAGAGCAAAGCTCCTAAATGTCTTAATAAGGTTTGCAAGCGAAG
1 CAACCTCCA-AAACAATTAGCGAGAGCAAAGCTCCCAACTATCATATTAAGGTTCGCAGGCGAAG
* *
84086295 AATCG
65 AGTCA
* * * * * ** * *
84086300 CAACTTCCAAAATAGTT-GCGATAGCAAAACTCCCAGTTGTCATATTAAGGTTCGCAGACGAA
1 CAACCTCCAAAACAATTAGCGAGAGCAAAGCTCCCAACTATCATATTAAGGTTCGCAGGCGAA
84086362 AAACCAAAAC
Statistics
Matches: 364, Mismatches: 105, Indels: 15
0.75 0.22 0.03
Matches are distributed among these distances:
68 38 0.10
69 321 0.88
70 5 0.01
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.23
Consensus pattern (69 bp):
CAACCTCCAAAACAATTAGCGAGAGCAAAGCTCCCAACTATCATATTAAGGTTCGCAGGCGAAGA
GTCA
Found at i:84086123 original size:138 final size:137
Alignment explanation
Indices: 84085791--84086352 Score: 407
Period size: 138 Copynumber: 4.1 Consensus size: 137
84085781 GTTCGTGTAT
* *
84085791 TATTAAGGTTTAAAGGCAAAGAGCCGCAACCTTCAAAACAATTAGCGAGAGCAAAGCTCCCAACT
1 TATTAAGGTTCAAAGGCAAAGAGCCGTAACCTTCAAAACAATTAGCGAGAGCAAAGCTCCCAACT
** * * * *
84085856 ATCATATTAAGACTCGTAGGCGAAGAG-CAGTAACCTCTAAAACAATTAGCGAAAGTAAAGCTCC
66 ATCATATTAAGGTTCGCAGGCGAAGAGTCA-CAACCTCTAAAACAGTTAGCGAAA-CAAAGCTCC
* * *
84085920 CTGTTGTCA
129 CAGCTATCA
* ** ** * * * * *
84085929 TATTAAAGTTCGTAGGTGAAGA-AC-TACAACTTCCAAAACAGTTAGTGAGGGCAAAGCTCCCAA
1 TATTAAGGTTCAAAGGCAAAGAGCCGTA-ACCTT-CAAAACAATTAGCGAGAGCAAAGCTCCCAA
* * * * *
84085992 CTATTATATTAAGGTTTGCAGGCGAAAAGTCACAACCTCCAAAACAGTTAGTGAGAACAAAGCTC
64 CTATCATATTAAGGTTCGCAGGCGAAGAGTCACAACCTCTAAAACAGTTAGCGA-AACAAAGCTC
84086057 CCAGCTATCA
128 CCAGCTATCA
* * * * * *
84086067 TATTAAGGTTCACAGGCAAAGAGCCGTAACCTTTAAAAAAATTAGCGAGAGTAAAGCTCTCAGCT
1 TATTAAGGTTCAAAGGCAAAGAGCCGTAACCTTCAAAACAATTAGCGAGAGCAAAGCTCCCAACT
* * * * * *
84086132 ATCATATTAAGGTTCACAAGTGAAGAGTTACAACCTTTAAAATAGTTAGCGACAACAAAGCTCCC
66 ATCATATTAAGGTTCGCAGGCGAAGAGTCACAACCTCTAAAACAGTTAGCGA-AACAAAGCTCCC
** *
84086197 AATTGT-A
130 AGCTATCA
* ** ** ** * * *
84086204 GTATTAAGGCTCGTAGGTGAAGAGCCACAACCTCCATAAA-AATTAACGAGAGCAAAGCTCCTAA
1 -TATTAAGGTTCAAAGGCAAAGAGCCGTAACCTTCA-AAACAATTAGCGAGAGCAAAGCTCCCAA
* * * * * * * * * * * * *
84086268 ATGTCTTAATAAGGTTTGCAAGCGAAGAATCGCAACTTCCAAAATAGTT-GCGATAGCAAAACTC
64 CTATCATATTAAGGTTCGCAGGCGAAGAGTCACAACCTCTAAAACAGTTAGCGA-AACAAAGCTC
* *
84086332 CCAGTTGTCA
128 CCAGCTATCA
84086342 TATTAAGGTTC
1 TATTAAGGTTC
84086353 GCAGACGAAA
Statistics
Matches: 327, Mismatches: 88, Indels: 19
0.75 0.20 0.04
Matches are distributed among these distances:
136 1 0.00
137 35 0.11
138 277 0.85
139 12 0.04
140 2 0.01
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.23
Consensus pattern (137 bp):
TATTAAGGTTCAAAGGCAAAGAGCCGTAACCTTCAAAACAATTAGCGAGAGCAAAGCTCCCAACT
ATCATATTAAGGTTCGCAGGCGAAGAGTCACAACCTCTAAAACAGTTAGCGAAACAAAGCTCCCA
GCTATCA
Found at i:84086283 original size:207 final size:207
Alignment explanation
Indices: 84085804--84086264 Score: 507
Period size: 207 Copynumber: 2.2 Consensus size: 207
84085794 TAAGGTTTAA
* * * **
84085804 AGGCAAAGAGCCGCAACCTTCAAAACAATTAGCGAGAGCAAAGCTCCCAACTATCATATTAAGAC
1 AGGCGAAGAGCCACAACCTCCAAAACAATTAGCGAGAGCAAAGCTCCCAACTATCATATTAAGGT
** * * * * *
84085869 TCGTAGGCGAAGAGCAGTAACCTCTAAAACAATTAGCGAAAGTAAAGCTCCCTGTTGTCATATTA
66 TCACAGGCAAAGAGCAGTAACCTCTAAAAAAATTAGCGAAAGTAAAGCTCCCAGCTATCATATTA
** * * ***
84085934 AAGTTCGTAGGTGAAGAACTACAACTTCCAAAACAGTTAGTGAGGGCAAAGCTCCCAACTATTAT
131 AAGTTCACAAGTGAAGAACTACAACTTCCAAAACAGTTAGCGACAACAAAGCTCCCAACTATTAT
* *
84085999 ATTAAGGTTTGC
196 ATTAAGGCTCGC
* * * * * *
84086011 AGGCGAAAAGTCACAACCTCCAAAACAGTTAGTGAGAACAAAGCTCCCAGCTATCATATTAAGGT
1 AGGCGAAGAGCCACAACCTCCAAAACAATTAGCGAGAGCAAAGCTCCCAACTATCATATTAAGGT
* * * *
84086076 TCACAGGCAAAGAGCCGTAACCTTTAAAAAAATTAGCGAGAGTAAAGCTCTCAGCTATCATATTA
66 TCACAGGCAAAGAGCAGTAACCTCTAAAAAAATTAGCGAAAGTAAAGCTCCCAGCTATCATATTA
* ** * *
84086141 AGGTTCACAAGTGAAGAGTTACAACCTT-TAAAATAGTTAGCGACAACAAAGCTCCCAA-T-TGT
131 AAGTTCACAAGTGAAGAACTACAA-CTTCCAAAACAGTTAGCGACAACAAAGCTCCCAACTAT-T
*
84086203 AGTATTAAGGCTCGT
194 A-TATTAAGGCTCGC
* *
84086218 AGGTGAAGAGCCACAACCTCCATAAA-AATTAACGAGAGCAAAGCTCC
1 AGGCGAAGAGCCACAACCTCCA-AAACAATTAGCGAGAGCAAAGCTCC
84086265 TAAATGTCTT
Statistics
Matches: 206, Mismatches: 44, Indels: 8
0.80 0.17 0.03
Matches are distributed among these distances:
205 1 0.00
206 3 0.01
207 196 0.95
208 6 0.03
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.21
Consensus pattern (207 bp):
AGGCGAAGAGCCACAACCTCCAAAACAATTAGCGAGAGCAAAGCTCCCAACTATCATATTAAGGT
TCACAGGCAAAGAGCAGTAACCTCTAAAAAAATTAGCGAAAGTAAAGCTCCCAGCTATCATATTA
AAGTTCACAAGTGAAGAACTACAACTTCCAAAACAGTTAGCGACAACAAAGCTCCCAACTATTAT
ATTAAGGCTCGC
Found at i:84088728 original size:36 final size:35
Alignment explanation
Indices: 84088688--84088756 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 35
84088678 AGATGAACAC
*
84088688 ATTAGTCAGAATAGATCCAAAAGGCTACTGAAATAA
1 ATTAGTCAAAATAGATCCAAAAGGCTACT-AAATAA
84088724 ATTAGTCAAAATAGATCCAAAAGGCTACTAAAT
1 ATTAGTCAAAATAGATCCAAAAGGCTACTAAAT
84088757 TGAATAGAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 4 0.12
36 28 0.88
ACGTcount: A:0.48, C:0.14, G:0.14, T:0.23
Consensus pattern (35 bp):
ATTAGTCAAAATAGATCCAAAAGGCTACTAAATAA
Found at i:84091832 original size:42 final size:42
Alignment explanation
Indices: 84091777--84091897 Score: 129
Period size: 43 Copynumber: 2.9 Consensus size: 42
84091767 TAGGGTTACT
* *
84091777 GAGATCACATGTAAGACCATATCCGGGATATGGCATCGATAT
1 GAGATTACATGTAAGACCATATCCGGGATATGGCATCGATAC
* * * * *
84091819 GAGACTT-CGTGTAAGACCATAGCTGGGCTATTAGCATCGATAC
1 GAGA-TTACATGTAAGACCATATCCGGGATA-TGGCATCGATAC
*
84091862 GAGATTACATGTAAGACCATATCTC-TGATATGGCAT
1 GAGATTACATGTAAGACCATATC-CGGGATATGGCAT
84091898 TGGTACGGTA
Statistics
Matches: 62, Mismatches: 13, Indels: 8
0.75 0.16 0.10
Matches are distributed among these distances:
42 30 0.48
43 32 0.52
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.26
Consensus pattern (42 bp):
GAGATTACATGTAAGACCATATCCGGGATATGGCATCGATAC
Found at i:84095911 original size:17 final size:17
Alignment explanation
Indices: 84095891--84095931 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
84095881 TTTGAATTTC
84095891 ATAGCTATTTGATACTT
1 ATAGCTATTTGATACTT
84095908 ATAGCTATTTGATACTT
1 ATAGCTATTTGATACTT
84095925 ATAGCTA
1 ATAGCTA
84095932 CTAGAACTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (17 bp):
ATAGCTATTTGATACTT
Found at i:84101147 original size:71 final size:71
Alignment explanation
Indices: 84101031--84101172 Score: 284
Period size: 71 Copynumber: 2.0 Consensus size: 71
84101021 ACCACTACAA
84101031 TTCATTTCCAAGTGGGGGACACTTTGGTGGTTCCCATACAGCAGTAAAGATCTTACAAGCTAGAT
1 TTCATTTCCAAGTGGGGGACACTTTGGTGGTTCCCATACAGCAGTAAAGATCTTACAAGCTAGAT
84101096 TCTTTT
66 TCTTTT
84101102 TTCATTTCCAAGTGGGGGACACTTTGGTGGTTCCCATACAGCAGTAAAGATCTTACAAGCTAGAT
1 TTCATTTCCAAGTGGGGGACACTTTGGTGGTTCCCATACAGCAGTAAAGATCTTACAAGCTAGAT
84101167 TCTTTT
66 TCTTTT
84101173 ACCCTACAGA
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 71 1.00
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (71 bp):
TTCATTTCCAAGTGGGGGACACTTTGGTGGTTCCCATACAGCAGTAAAGATCTTACAAGCTAGAT
TCTTTT
Found at i:84102204 original size:16 final size:17
Alignment explanation
Indices: 84102178--84102211 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
84102168 AAATTATTAG
*
84102178 ACCCTTAATTTTTCATA
1 ACCCTTAATTTTTAATA
84102195 ACCC-TAATTTTTAATA
1 ACCCTTAATTTTTAATA
84102211 A
1 A
84102212 AAAGTTAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.35, C:0.21, G:0.00, T:0.44
Consensus pattern (17 bp):
ACCCTTAATTTTTAATA
Found at i:84102398 original size:12 final size:12
Alignment explanation
Indices: 84102366--84102398 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
84102356 ATTTCAAAAA
*
84102366 TTTTATTTCTAG
1 TTTTATTTTTAG
84102378 TTTTATTTTT-G
1 TTTTATTTTTAG
84102389 TTTTATTTTT
1 TTTTATTTTT
84102399 CATTTTAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 11 0.55
12 9 0.45
ACGTcount: A:0.12, C:0.03, G:0.06, T:0.79
Consensus pattern (12 bp):
TTTTATTTTTAG
Found at i:84106421 original size:43 final size:41
Alignment explanation
Indices: 84106365--84106521 Score: 133
Period size: 43 Copynumber: 3.7 Consensus size: 41
84106355 ATATCGTACA
84106365 ATGCCTAC-GTCCCAGACGTGGTCTTACATGTAATCACATGTCG
1 ATGCC-ACTGTCCCAGACGTGGTCTTACATG-AATCACAT-TCG
* * *
84106408 ATGCCACTATCCCAGACAG-GGTTTTACATGAATCACAATTACA
1 ATGCCACTGTCCCAGAC-GTGGTCTTACATGAATCAC-ATT-CG
* *
84106451 ATGCCATTGTCCCAGACATGGTCTTAC-TCGAAATCACATATCG
1 ATGCCACTGTCCCAGACGTGGTCTTACAT-G-AATCACAT-TCG
* *
84106494 ATGCCAAC-GTCCTAGATGTGGTCTTACA
1 ATGCC-ACTGTCCCAGACGTGGTCTTACA
84106522 CGAGAACACA
Statistics
Matches: 92, Mismatches: 12, Indels: 19
0.75 0.10 0.15
Matches are distributed among these distances:
42 10 0.11
43 73 0.79
44 9 0.10
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (41 bp):
ATGCCACTGTCCCAGACGTGGTCTTACATGAATCACATTCG
Found at i:84109847 original size:49 final size:48
Alignment explanation
Indices: 84109762--84109990 Score: 173
Period size: 49 Copynumber: 4.8 Consensus size: 48
84109752 ACACTGATAG
* * * *
84109762 ATGAGAGCCACTGTAAGACCTATTTGGGACACGGCATCCGCCTCAAGAT
1 ATGA-AGCCAGTGTAAGACCTATCTGGGACATGGCATCCGCCTCGAGAT
* * ** *
84109811 ATGCAAGCTAGTGTAAGACCTGTCTGGGACATGGCATAAG-CTTGAG--
1 ATG-AAGCCAGTGTAAGACCTATCTGGGACATGGCATCCGCCTCGAGAT
* * * * * * *
84109857 GTG-TGTCAGTGTAAGATCTGTCTGGGACATGGCAT-CGACAC-AGAT
1 ATGAAGCCAGTGTAAGACCTATCTGGGACATGGCATCCGCCTCGAGAT
* * * *
84109902 AAGTGAGAGCCAGTGTAAAACCTATTTGGGACATGGCATCGGCCTCGATAT
1 -A-TGA-AGCCAGTGTAAGACCTATCTGGGACATGGCATCCGCCTCGAGAT
*
84109953 ATGGAAGCCAGTGTAAAACCTATCTGGGACATGGCATC
1 AT-GAAGCCAGTGTAAGACCTATCTGGGACATGGCATC
84109991 TACTTAGATG
Statistics
Matches: 140, Mismatches: 29, Indels: 22
0.73 0.15 0.12
Matches are distributed among these distances:
43 3 0.02
44 29 0.21
46 2 0.01
47 2 0.01
48 4 0.03
49 90 0.64
50 7 0.05
51 3 0.02
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (48 bp):
ATGAAGCCAGTGTAAGACCTATCTGGGACATGGCATCCGCCTCGAGAT
Found at i:84113094 original size:25 final size:25
Alignment explanation
Indices: 84113059--84113138 Score: 106
Period size: 25 Copynumber: 3.2 Consensus size: 25
84113049 GGACACATCA
* *
84113059 CAGCTCGTATGAGCTTCCCGTTGTT
1 CAGCTCGTATGAGCTTCCCATTATT
* *
84113084 TAGCTTGTATGAGCTTCCCATTATT
1 CAGCTCGTATGAGCTTCCCATTATT
* *
84113109 CAGCTGGCATGAGCTTCCCATTATT
1 CAGCTCGTATGAGCTTCCCATTATT
84113134 CAGCT
1 CAGCT
84113139 TGGAAGATCT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 48 1.00
ACGTcount: A:0.17, C:0.26, G:0.20, T:0.36
Consensus pattern (25 bp):
CAGCTCGTATGAGCTTCCCATTATT
Found at i:84113541 original size:13 final size:13
Alignment explanation
Indices: 84113523--84113547 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
84113513 CTGTGTTATT
84113523 TTCTATGTTTTAA
1 TTCTATGTTTTAA
84113536 TTCTATGTTTTA
1 TTCTATGTTTTA
84113548 TAGTAATTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.08, G:0.08, T:0.64
Consensus pattern (13 bp):
TTCTATGTTTTAA
Found at i:84114745 original size:21 final size:21
Alignment explanation
Indices: 84114721--84114772 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
84114711 TGTGGTTTAG
84114721 AGACACGCCCGTGTGTCTCTA
1 AGACACGCCCGTGTGTCTCTA
84114742 AGACACGCCCGTGTGTCTCTA
1 AGACACGCCCGTGTGTCTCTA
*
84114763 AGACATGCCC
1 AGACACGCCC
84114773 TGTTATCACC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.21, C:0.35, G:0.23, T:0.21
Consensus pattern (21 bp):
AGACACGCCCGTGTGTCTCTA
Found at i:84116107 original size:2 final size:2
Alignment explanation
Indices: 84116100--84116124 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
84116090 ACCACTTACC
84116100 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
84116125 ATAAATGCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:84116830 original size:8 final size:8
Alignment explanation
Indices: 84116817--84116844 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
84116807 CTTTTATATT
84116817 TTATTATA
1 TTATTATA
84116825 TTATTATA
1 TTATTATA
84116833 TTATTATA
1 TTATTATA
84116841 TTAT
1 TTAT
84116845 GTACTTAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
TTATTATA
Found at i:84120215 original size:68 final size:70
Alignment explanation
Indices: 84120143--84120340 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
84120133 ACACCCTGTA
* * * *
84120143 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
84120205 ATAAAT
65 ATAAAT
*
84120211 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
84120276 ATAAAT
65 ATAAAT
*
84120282 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
84120341 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:84120254 original size:41 final size:41
Alignment explanation
Indices: 84120209--84120326 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
84120199 TGAAAGATAA
84120209 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
84120250 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
84120280 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
84120321 ATGTAG
1 ATGTAG
84120327 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:84120266 original size:71 final size:71
Alignment explanation
Indices: 84120177--84120340 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
84120167 GAGATGTATC
84120177 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
84120242 AGGACA
66 AGGACA
84120248 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
84120313 AGGACA
66 AGGACA
84120319 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
84120341 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:84127781 original size:68 final size:70
Alignment explanation
Indices: 84127709--84127906 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
84127699 ACACCCTGTA
* * * *
84127709 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
84127771 ATAAAT
65 ATAAAT
*
84127777 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
84127842 ATAAAT
65 ATAAAT
*
84127848 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
84127907 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:84127820 original size:41 final size:41
Alignment explanation
Indices: 84127775--84127892 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
84127765 TGAAAGATAA
84127775 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
84127816 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
84127846 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
84127887 ATGTAG
1 ATGTAG
84127893 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:84127832 original size:71 final size:71
Alignment explanation
Indices: 84127743--84127906 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
84127733 GAGATGTATC
84127743 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
84127808 AGGACA
66 AGGACA
84127814 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
84127879 AGGACA
66 AGGACA
84127885 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
84127907 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:84133286 original size:79 final size:80
Alignment explanation
Indices: 84133143--84133350 Score: 190
Period size: 79 Copynumber: 2.6 Consensus size: 80
84133133 ACCTTCGGAG
* * ** * * * *
84133143 CTTAA-CCGGATATAGCTACTCGTTCAAACGCCTTCGGGACATAGCCCGGATATGGTAACCCGCA
1 CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATGATAACCCGCA
84133207 CCAAGGCCTACGGGA
66 CCAAGGCCTACGGGA
* * * *
84133222 CTTAACCCGGATATCA-CGA-TTGCACAAATGCCTTCGGGTCTTAGCCCGGATA-GAATGACTCG
1 CTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATG-ATAACCCG
* * * *
84133284 CACGAATGCCTTCGGGT
64 CACCAAGGCCTACGGGA
* * * *
84133301 CTTAGCCCGGATATAGCCACTAGCACCATTGCCTTCGGGTCTTAACCCGG
1 CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGG
84133351 TTATAATTTC
Statistics
Matches: 104, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
78 2 0.02
79 65 0.62
80 36 0.35
81 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.22
Consensus pattern (80 bp):
CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATGATAACCCGCA
CCAAGGCCTACGGGA
Found at i:84133295 original size:40 final size:40
Alignment explanation
Indices: 84133243--84133350 Score: 135
Period size: 40 Copynumber: 2.7 Consensus size: 40
84133233 TATCACGATT
** *
84133243 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * *
84133283 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * *
84133323 GCACCATTGCCTTCGGGTCTTAACCCGG
1 GCACAAATGCCTTCGGGTCTTAGCCCGG
84133351 TTATAATTTC
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.21, C:0.31, G:0.25, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
Found at i:84141359 original size:79 final size:80
Alignment explanation
Indices: 84141216--84141423 Score: 190
Period size: 79 Copynumber: 2.6 Consensus size: 80
84141206 ACCTTCGGAG
* * ** * * * *
84141216 CTTAA-CCGGATATAGCTACTCGTTCAAACGCCTTCGGGACATAGCCCGGATATGGTAACCCGCA
1 CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATGATAACCCGCA
84141280 CCAAGGCCTACGGGA
66 CCAAGGCCTACGGGA
* * * *
84141295 CTTAACCCGGATATCA-CGA-TTGCACAAATGCCTTCGGGTCTTAGCCCGGATA-GAATGACTCG
1 CTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATG-ATAACCCG
* * * *
84141357 CACGAATGCCTTCGGGT
64 CACCAAGGCCTACGGGA
* * * *
84141374 CTTAGCCCGGATATAGCCACTAGCACCATTGCCTTCGGGTCTTAACCCGG
1 CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGG
84141424 TTATAATTTC
Statistics
Matches: 104, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
78 2 0.02
79 65 0.62
80 36 0.35
81 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.22
Consensus pattern (80 bp):
CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATGATAACCCGCA
CCAAGGCCTACGGGA
Found at i:84141368 original size:40 final size:40
Alignment explanation
Indices: 84141316--84141423 Score: 135
Period size: 40 Copynumber: 2.7 Consensus size: 40
84141306 TATCACGATT
** *
84141316 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * *
84141356 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * *
84141396 GCACCATTGCCTTCGGGTCTTAACCCGG
1 GCACAAATGCCTTCGGGTCTTAGCCCGG
84141424 TTATAATTTC
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.21, C:0.31, G:0.25, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
Found at i:84145296 original size:18 final size:18
Alignment explanation
Indices: 84145269--84145443 Score: 119
Period size: 18 Copynumber: 9.7 Consensus size: 18
84145259 CAATTGATCG
*
84145269 ATTATCCAGTAACAGTCA
1 ATTATTCAGTAACAGTCA
*
84145287 ATTATTCAGTAA-AATCA
1 ATTATTCAGTAACAGTCA
*
84145304 GA-TATTCAGTAACTA-TTA
1 -ATTATTCAGTAAC-AGTCA
*
84145322 AGTTATTCAGTAGCAGTC-
1 A-TTATTCAGTAACAGTCA
* *
84145340 ATTCATTCAGTGACAATCA
1 ATT-ATTCAGTAACAGTCA
* *
84145359 GTTATTCAGTAA-TGATCA
1 ATTATTCAGTAACAG-TCA
84145377 ATTTATTCAGTAACAGTCTA
1 A-TTATTCAGTAACAGTC-A
* * * *
84145397 A-TATCCAGAAATAGTTA
1 ATTATTCAGTAACAGTCA
* *
84145414 ATTATCCGGTAACAGTCA
1 ATTATTCAGTAACAGTCA
84145432 ATTATTCAGTAA
1 ATTATTCAGTAA
84145444 TAATCAGTTA
Statistics
Matches: 120, Mismatches: 24, Indels: 26
0.71 0.14 0.15
Matches are distributed among these distances:
17 19 0.16
18 71 0.59
19 27 0.22
20 3 0.03
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (18 bp):
ATTATTCAGTAACAGTCA
Found at i:84145383 original size:55 final size:54
Alignment explanation
Indices: 84145270--84145394 Score: 155
Period size: 55 Copynumber: 2.3 Consensus size: 54
84145260 AATTGATCGA
* *
84145270 TTATCCAGTAACAGTCAATTATTCAGTAAAATCAGATATTCAGTAACTATTAAG
1 TTATTCAGTAACAGTCAATTATTCAGTAAAATCAGATATTCAGTAACTATCAAG
* * * *
84145324 TTATTCAGTAGCAGTC-ATTCATTCAGTGACAATCAGTTATTCAGTAA-TGATCAAT
1 TTATTCAGTAACAGTCAATT-ATTCAGT-AAAATCAGATATTCAGTAACT-ATCAAG
84145379 TTATTCAGTAACAGTC
1 TTATTCAGTAACAGTC
84145395 TAATATCCAG
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
53 3 0.05
54 22 0.36
55 36 0.59
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (54 bp):
TTATTCAGTAACAGTCAATTATTCAGTAAAATCAGATATTCAGTAACTATCAAG
Found at i:84145682 original size:45 final size:45
Alignment explanation
Indices: 84145623--84145862 Score: 336
Period size: 45 Copynumber: 5.3 Consensus size: 45
84145613 ATTTGGAATA
* * * **
84145623 GTAACAGTAGCAGTAACAGTATTCAACACACAAAGTGTTGAATCG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
* *
84145668 GTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCGAATTG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
* * *
84145713 GTAACGGTAATAGTAACAATATTCGACACACACAGTGCCGAATCG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
* * *
84145758 ATAACGGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCA
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
* *
84145803 GTAACAGTAGCAGTAACAATATTCGACACACAAAATGCCGAATCG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
*
84145848 GTAACAGTAGCAGTA
1 GTAACAGTAACAGTA
84145863 GCGGTAACAG
Statistics
Matches: 176, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 176 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (45 bp):
GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
Found at i:84146282 original size:5 final size:5
Alignment explanation
Indices: 84146271--84146318 Score: 60
Period size: 5 Copynumber: 9.2 Consensus size: 5
84146261 AATTAATCAT
* *
84146271 AATTC CATTC CATTC AATTC AATTC AATTC AAATTC AATTC AAATTC A
1 AATTC AATTC AATTC AATTC AATTC AATTC -AATTC AATTC -AATTC A
84146319 CTTTTCCACT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
5 29 0.74
6 10 0.26
ACGTcount: A:0.40, C:0.23, G:0.00, T:0.38
Consensus pattern (5 bp):
AATTC
Found at i:84146307 original size:11 final size:11
Alignment explanation
Indices: 84146282--84146318 Score: 67
Period size: 11 Copynumber: 3.5 Consensus size: 11
84146272 ATTCCATTCC
84146282 ATTCAATTC-A
1 ATTCAATTCAA
84146292 ATTCAATTCAA
1 ATTCAATTCAA
84146303 ATTCAATTCAA
1 ATTCAATTCAA
84146314 ATTCA
1 ATTCA
84146319 CTTTTCCACT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 9 0.35
11 17 0.65
ACGTcount: A:0.43, C:0.19, G:0.00, T:0.38
Consensus pattern (11 bp):
ATTCAATTCAA
Found at i:84147629 original size:4 final size:4
Alignment explanation
Indices: 84147620--84147650 Score: 53
Period size: 4 Copynumber: 7.5 Consensus size: 4
84147610 CCTTTTCTCC
84147620 CTTT CTTT CTTT CTTT CTTT CCTTT CTTT CT
1 CTTT CTTT CTTT CTTT CTTT -CTTT CTTT CT
84147651 CCCCTGTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 22 0.85
5 4 0.15
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (4 bp):
CTTT
Found at i:84147711 original size:9 final size:9
Alignment explanation
Indices: 84147693--84147727 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
84147683 TTTCTTTTTC
*
84147693 ATTTCTTTT
1 ATTTCATTT
84147702 ATTTCATTT
1 ATTTCATTT
84147711 ATTTC-TTT
1 ATTTCATTT
84147719 ATTTCATTT
1 ATTTCATTT
84147728 CTTTATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
8 8 0.33
9 16 0.67
ACGTcount: A:0.17, C:0.11, G:0.00, T:0.71
Consensus pattern (9 bp):
ATTTCATTT
Found at i:84147719 original size:17 final size:18
Alignment explanation
Indices: 84147693--84147739 Score: 69
Period size: 17 Copynumber: 2.7 Consensus size: 18
84147683 TTTCTTTTTC
84147693 ATTTCTTTTATTTCATTT
1 ATTTCTTTTATTTCATTT
84147711 ATTTC-TTTATTTCATTT
1 ATTTCTTTTATTTCATTT
* *
84147728 CTTTATTTTATT
1 ATTTCTTTTATT
84147740 ATTAAACTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 15 0.58
18 11 0.42
ACGTcount: A:0.17, C:0.11, G:0.00, T:0.72
Consensus pattern (18 bp):
ATTTCTTTTATTTCATTT
Found at i:84147729 original size:13 final size:13
Alignment explanation
Indices: 84147693--84147735 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
84147683 TTTCTTTTTC
* *
84147693 ATTTCTTTTATTT
1 ATTTCATTTCTTT
84147706 CATTT-ATTTCTTT
1 -ATTTCATTTCTTT
84147719 ATTTCATTTCTTT
1 ATTTCATTTCTTT
84147732 ATTT
1 ATTT
84147736 TATTATTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 4 0.15
13 18 0.69
14 4 0.15
ACGTcount: A:0.16, C:0.12, G:0.00, T:0.72
Consensus pattern (13 bp):
ATTTCATTTCTTT
Found at i:84152597 original size:36 final size:36
Alignment explanation
Indices: 84152524--84152597 Score: 94
Period size: 36 Copynumber: 2.1 Consensus size: 36
84152514 AGAGGAGCAC
* * * *
84152524 ATCAGTTAGAATAGATCCGAAAGGTTGCAAAATTGA
1 ATCAGTCAGAATAGATCCGAAAGGCTACAAAACTGA
* *
84152560 ATCAGTCAGAATAGATCTGAAAGGCTACTAAACTGA
1 ATCAGTCAGAATAGATCCGAAAGGCTACAAAACTGA
84152596 AT
1 AT
84152598 ATAATTTACT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.42, C:0.14, G:0.20, T:0.24
Consensus pattern (36 bp):
ATCAGTCAGAATAGATCCGAAAGGCTACAAAACTGA
Found at i:84157153 original size:16 final size:18
Alignment explanation
Indices: 84157134--84157166 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
84157124 CATACGAATT
84157134 CCAAAAC-ATA-ATAGTA
1 CCAAAACGATAGATAGTA
84157150 CCAAAACGATAGATAGT
1 CCAAAACGATAGATAGT
84157167 GTGACGAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.52, C:0.18, G:0.12, T:0.18
Consensus pattern (18 bp):
CCAAAACGATAGATAGTA
Found at i:84157794 original size:43 final size:42
Alignment explanation
Indices: 84157734--84157937 Score: 241
Period size: 43 Copynumber: 4.8 Consensus size: 42
84157724 ACTCATTCAC
* *
84157734 CGGCATTACA-CCTGCTAAGCTCGAAGCCTGATATTAACTCA
1 CGGCATTATAGCCTGCTAAGCTCGAAGCCCGATATTAACTCA
*
84157775 TCGGCATTATAGCCTGCTAAGCTCAAAGCCCGATATTAACTCA
1 -CGGCATTATAGCCTGCTAAGCTCGAAGCCCGATATTAACTCA
* * * *
84157818 CTGACATTATAGCCTGCCAGGCTCGAAGCCTGATATTAACTCA
1 C-GGCATTATAGCCTGCTAAGCTCGAAGCCCGATATTAACTCA
*
84157861 CCGACATTATAGCCTGC-AAGGCTCGAAGCCCGATATTAACTCA
1 -CGGCATTATAGCCTGCTAA-GCTCGAAGCCCGATATTAACTCA
* * *
84157904 CTAGCATTATAGCTTGCTAGGCTCGAAGGCCCGA
1 C-GGCATTATAGCCTGCTAAGCTCGAA-GCCCGA
84157938 ATAGTACTGT
Statistics
Matches: 141, Mismatches: 14, Indels: 12
0.84 0.08 0.07
Matches are distributed among these distances:
42 12 0.09
43 121 0.86
44 8 0.06
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.24
Consensus pattern (42 bp):
CGGCATTATAGCCTGCTAAGCTCGAAGCCCGATATTAACTCA
Found at i:84157842 original size:86 final size:86
Alignment explanation
Indices: 84157752--84157931 Score: 283
Period size: 86 Copynumber: 2.1 Consensus size: 86
84157742 CACCTGCTAA
* *
84157752 GCTCGAAGCCTGATATTAACTCATCGGCATTATAGCCTGCTAA-GCTCAAAGCCCGATATTAACT
1 GCTCGAAGCCTGATATTAACTCACCGACATTATAGCCTGC-AAGGCTCAAAGCCCGATATTAACT
84157816 CACT-GACATTATAGCCTGCCAG
65 CACTAG-CATTATAGCCTGCCAG
*
84157838 GCTCGAAGCCTGATATTAACTCACCGACATTATAGCCTGCAAGGCTCGAAGCCCGATATTAACTC
1 GCTCGAAGCCTGATATTAACTCACCGACATTATAGCCTGCAAGGCTCAAAGCCCGATATTAACTC
* *
84157903 ACTAGCATTATAGCTTGCTAG
66 ACTAGCATTATAGCCTGCCAG
84157924 GCTCGAAG
1 GCTCGAAG
84157932 GCCCGAATAG
Statistics
Matches: 87, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
85 2 0.02
86 84 0.97
87 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (86 bp):
GCTCGAAGCCTGATATTAACTCACCGACATTATAGCCTGCAAGGCTCAAAGCCCGATATTAACTC
ACTAGCATTATAGCCTGCCAG
Found at i:84160841 original size:30 final size:30
Alignment explanation
Indices: 84160806--84160877 Score: 135
Period size: 30 Copynumber: 2.4 Consensus size: 30
84160796 CTATGGGAGC
84160806 TGACCGTGTGTCACACACGGCCTAGACACA
1 TGACCGTGTGTCACACACGGCCTAGACACA
84160836 TGACCGTGTGTCACACACGGCCTAGACACA
1 TGACCGTGTGTCACACACGGCCTAGACACA
*
84160866 TGCCCGTGTGTC
1 TGACCGTGTGTC
84160878 TACCCATGTG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.22, C:0.33, G:0.25, T:0.19
Consensus pattern (30 bp):
TGACCGTGTGTCACACACGGCCTAGACACA
Found at i:84172721 original size:29 final size:31
Alignment explanation
Indices: 84172671--84172732 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 31
84172661 ATTTTAATAG
**
84172671 TTTTTATTTTTATAATTTTTAAAATCA-ATTT
1 TTTTTATTTTTATAATGATTAAAAT-ATATTT
84172702 TTTTTATTTTTA-AA-GATTAAAATATATTT
1 TTTTTATTTTTATAATGATTAAAATATATTT
84172731 TT
1 TT
84172733 ATAATTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 1 0.04
29 13 0.46
30 2 0.07
31 12 0.43
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.63
Consensus pattern (31 bp):
TTTTTATTTTTATAATGATTAAAATATATTT
Found at i:84172740 original size:27 final size:27
Alignment explanation
Indices: 84172702--84172756 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 27
84172692 AAATCAATTT
*
84172702 TTTTTATTTTTAAAGA-TTAAAA-TATA
1 TTTTTATATTTAAA-ACTTAAAATTATA
84172728 TTTTTATAATTTAAAACTTAAAATTATA
1 TTTTTAT-ATTTAAAACTTAAAATTATA
84172756 T
1 T
84172757 AAAATTTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 8 0.32
27 12 0.48
28 5 0.20
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (27 bp):
TTTTTATATTTAAAACTTAAAATTATA
Found at i:84184000 original size:93 final size:93
Alignment explanation
Indices: 84183869--84184039 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
84183859 ATCCATGAGT
* * * * *
84183869 GAACTTGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
84183934 CGAGTTCGGATGCCTAGTTACATCTCAA
66 CGAGTTCGGATGCCTAGTTACATCTCAA
* * *
84183962 GAACTCGGATTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
84184027 CGAGTTCGGATGC
66 CGAGTTCGGATGC
84184040 TCAACCATCC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAA
Found at i:84184036 original size:46 final size:46
Alignment explanation
Indices: 84183815--84184036 Score: 229
Period size: 46 Copynumber: 4.8 Consensus size: 46
84183805 TGTAACCTGC
* * * *
84183815 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * * * * *
84183861 CCATGAGTGAACTTGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
84183907 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
84183957 -C-TCAA--GAACTCGGATTCAACTCAACGAGTTCGGACATTTGCAT
1 CCAT-AAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
84184000 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
84184037 TGCTCAACCA
Statistics
Matches: 151, Mismatches: 14, Indels: 22
0.81 0.07 0.12
Matches are distributed among these distances:
42 2 0.01
43 4 0.03
44 4 0.03
45 1 0.01
46 103 0.68
47 28 0.19
48 1 0.01
49 3 0.02
50 3 0.02
51 2 0.01
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:84185671 original size:105 final size:105
Alignment explanation
Indices: 84185552--84185750 Score: 337
Period size: 105 Copynumber: 1.9 Consensus size: 105
84185542 TATCGCTAGC
* * *
84185552 CGTGTGCCGGACCGTGTAACTT-ATTGACTTGGTACACACGGTCGTGTCTCAGACCGTGTGAAAC
1 CGTGTACCAGACCGTGTAA-TTCACTGACTTGGTACACACGGTCGTGTCTCAGACCGTGTGAAAC
84185616 ATGCACCTAAAATAAAAATGACACACGACCATGTCGCAAGT
65 ATGCACCTAAAATAAAAATGACACACGACCATGTCGCAAGT
* *
84185657 CGTGTACCAGACCGTGTAATTCACTGACTTGGTACACACGGTCGTGTCTCAGATCGTGTGAAACC
1 CGTGTACCAGACCGTGTAATTCACTGACTTGGTACACACGGTCGTGTCTCAGACCGTGTGAAACA
84185722 TGCACCTAAAATAAAAATGACACACGACC
66 TGCACCTAAAATAAAAATGACACACGACC
84185751 GTGTGGCCAG
Statistics
Matches: 88, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 2 0.02
105 86 0.98
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.23
Consensus pattern (105 bp):
CGTGTACCAGACCGTGTAATTCACTGACTTGGTACACACGGTCGTGTCTCAGACCGTGTGAAACA
TGCACCTAAAATAAAAATGACACACGACCATGTCGCAAGT
Found at i:84190343 original size:20 final size:20
Alignment explanation
Indices: 84190305--84190343 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
84190295 TGGAGCAGGA
* *
84190305 ATATCGATACCATAGGAAAT
1 ATATCAATACCATAAGAAAT
*
84190325 ATATCAATACCTTAAGAAA
1 ATATCAATACCATAAGAAA
84190344 AGTATCGATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.49, C:0.15, G:0.10, T:0.26
Consensus pattern (20 bp):
ATATCAATACCATAAGAAAT
Found at i:84193471 original size:22 final size:22
Alignment explanation
Indices: 84193436--84193484 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
84193426 TCATGGACAT
*
84193436 GGAAGGTCACACTAATGAGCAA
1 GGAAGATCACACTAATGAGCAA
* * *
84193458 GGAAGATCATACTAATGGGCGA
1 GGAAGATCACACTAATGAGCAA
84193480 GGAAG
1 GGAAG
84193485 TAATTGAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.39, C:0.14, G:0.33, T:0.14
Consensus pattern (22 bp):
GGAAGATCACACTAATGAGCAA
Found at i:84194413 original size:4 final size:4
Alignment explanation
Indices: 84194404--84194434 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
84194394 TTAACTGATA
*
84194404 ACAT ACAT ACAT ACAA ACAT ACAT ACAT ACA
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA
84194435 AGACGCAGCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.55, C:0.26, G:0.00, T:0.19
Consensus pattern (4 bp):
ACAT
Found at i:84194424 original size:16 final size:16
Alignment explanation
Indices: 84194403--84194435 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
84194393 CTTAACTGAT
84194403 AACATACATACATACA
1 AACATACATACATACA
84194419 AACATACATACATACA
1 AACATACATACATACA
84194435 A
1 A
84194436 GACGCAGCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.24, G:0.00, T:0.18
Consensus pattern (16 bp):
AACATACATACATACA
Found at i:84199802 original size:130 final size:130
Alignment explanation
Indices: 84199569--84199828 Score: 520
Period size: 130 Copynumber: 2.0 Consensus size: 130
84199559 ACATACCAAA
84199569 AGAATAAATGTCGACAAGCTCATTATACTCCTCATCATAAAGCTCTGGAGCCATGAATTCAGGTG
1 AGAATAAATGTCGACAAGCTCATTATACTCCTCATCATAAAGCTCTGGAGCCATGAATTCAGGTG
84199634 TTCCTACACCAAAGAACAAAGCATTACAAATTTCAACTGAAATGGATTAGCTGAAGCCACAGCAT
66 TTCCTACACCAAAGAACAAAGCATTACAAATTTCAACTGAAATGGATTAGCTGAAGCCACAGCAT
84199699 AGAATAAATGTCGACAAGCTCATTATACTCCTCATCATAAAGCTCTGGAGCCATGAATTCAGGTG
1 AGAATAAATGTCGACAAGCTCATTATACTCCTCATCATAAAGCTCTGGAGCCATGAATTCAGGTG
84199764 TTCCTACACCAAAGAACAAAGCATTACAAATTTCAACTGAAATGGATTAGCTGAAGCCACAGCAT
66 TTCCTACACCAAAGAACAAAGCATTACAAATTTCAACTGAAATGGATTAGCTGAAGCCACAGCAT
84199829 TACTTATTTT
Statistics
Matches: 130, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
130 130 1.00
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.24
Consensus pattern (130 bp):
AGAATAAATGTCGACAAGCTCATTATACTCCTCATCATAAAGCTCTGGAGCCATGAATTCAGGTG
TTCCTACACCAAAGAACAAAGCATTACAAATTTCAACTGAAATGGATTAGCTGAAGCCACAGCAT
Found at i:84208874 original size:22 final size:22
Alignment explanation
Indices: 84208818--84208877 Score: 70
Period size: 22 Copynumber: 2.6 Consensus size: 22
84208808 TTTAAGTAAT
84208818 TTTATTTTT-TTCTTTTATGTTC
1 TTTATTTTTATTCTTTTA-GTTC
84208840 TTTAAATTTTTATTCTTTTA-TTC
1 TTT--ATTTTTATTCTTTTAGTTC
84208863 TTTATTTTTTATTCT
1 TTTA-TTTTTATTCT
84208878 CTTTTGCTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
21 1 0.03
22 13 0.38
23 6 0.18
24 6 0.18
25 8 0.24
ACGTcount: A:0.15, C:0.08, G:0.02, T:0.75
Consensus pattern (22 bp):
TTTATTTTTATTCTTTTAGTTC
Found at i:84213471 original size:40 final size:40
Alignment explanation
Indices: 84213426--84213506 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
84213416 CAGAAAACCT
84213426 TGGTGTTGAGTTTTTCAAAGGTACTGTTGTGGTATAATAA
1 TGGTGTTGAGTTTTTCAAAGGTACTGTTGTGGTATAATAA
*
84213466 TGGTGTTGAGTTTTTCAATGGTACTGTTGTGGTATAATAA
1 TGGTGTTGAGTTTTTCAAAGGTACTGTTGTGGTATAATAA
84213506 T
1 T
84213507 CTTCCCATTA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.23, C:0.05, G:0.27, T:0.44
Consensus pattern (40 bp):
TGGTGTTGAGTTTTTCAAAGGTACTGTTGTGGTATAATAA
Found at i:84214363 original size:46 final size:44
Alignment explanation
Indices: 84214269--84214369 Score: 125
Period size: 44 Copynumber: 2.3 Consensus size: 44
84214259 TGCTATTACA
* **
84214269 TATT-TATTTCATTCAACCAAACACAATAATACTATTACAGTTC
1 TATTCTATTACATTCAACCAAACACAATAATACTATTACAGGCC
*
84214312 TATTCTATTACATTCAACCAAACA-ATTGAATTACTGATTACAGGCC
1 TATTCTATTACATTCAACCAAACACAAT-AA-TACT-ATTACAGGCC
84214358 TATTCTATTACA
1 TATTCTATTACA
84214370 GCTCTATTCC
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
43 6 0.12
44 20 0.40
45 4 0.08
46 20 0.40
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (44 bp):
TATTCTATTACATTCAACCAAACACAATAATACTATTACAGGCC
Found at i:84214369 original size:16 final size:16
Alignment explanation
Indices: 84214348--84214398 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
84214338 TGAATTACTG
*
84214348 ATTACAGGCCTATTCT
1 ATTACAGGCCTATTCC
84214364 ATTACA-GCTCTATTCC
1 ATTACAGGC-CTATTCC
*
84214380 ATTACAGCCCTATTCC
1 ATTACAGGCCTATTCC
84214396 ATT
1 ATT
84214399 CCAGTGAACC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
15 2 0.06
16 28 0.90
17 1 0.03
ACGTcount: A:0.25, C:0.29, G:0.08, T:0.37
Consensus pattern (16 bp):
ATTACAGGCCTATTCC
Found at i:84214753 original size:18 final size:18
Alignment explanation
Indices: 84214730--84214768 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
84214720 AACACTCTAC
84214730 AATGGCATCCACAATAGG
1 AATGGCATCCACAATAGG
84214748 AATGGCATCCACAATAGG
1 AATGGCATCCACAATAGG
84214766 AAT
1 AAT
84214769 ATCCAAGAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.41, C:0.21, G:0.21, T:0.18
Consensus pattern (18 bp):
AATGGCATCCACAATAGG
Found at i:84217662 original size:31 final size:31
Alignment explanation
Indices: 84217624--84217686 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
84217614 CACTTTTTCG
*
84217624 TTTATTAGGAGAATTTAGTGCTATATGACAT
1 TTTATTAGGACAATTTAGTGCTATATGACAT
84217655 TTTATTAGGACAATTTAGTGCTATATGACAT
1 TTTATTAGGACAATTTAGTGCTATATGACAT
84217686 T
1 T
84217687 CTTCATCACA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.08, G:0.17, T:0.43
Consensus pattern (31 bp):
TTTATTAGGACAATTTAGTGCTATATGACAT
Found at i:84220743 original size:34 final size:34
Alignment explanation
Indices: 84220705--84220781 Score: 86
Period size: 34 Copynumber: 2.3 Consensus size: 34
84220695 ATTGATTTAC
84220705 ATATTTGAAAACTTAAATATAAAT-TAT-TTTATTT
1 ATATTT-AAAA-TTAAATATAAATATATGTTTATTT
* * * *
84220739 ATATTTTACATTATATATAAATATGTGTTTATTT
1 ATATTTAAAATTAAATATAAATATATGTTTATTT
84220773 ATATTTAAA
1 ATATTTAAA
84220782 TATTTTGTTC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
32 11 0.31
33 4 0.11
34 20 0.57
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.52
Consensus pattern (34 bp):
ATATTTAAAATTAAATATAAATATATGTTTATTT
Found at i:84222072 original size:46 final size:46
Alignment explanation
Indices: 84221973--84222098 Score: 182
Period size: 46 Copynumber: 2.7 Consensus size: 46
84221963 GAGGCATCCA
* * * *
84221973 AACTTGTTGAGTTGCGTTCCGAGTTCACCTATGGATGCAAGCATCCG
1 AACTCGTTGAGTTGTGTTCCGAGTTCA-TTATGGATGCAAGCACCCG
84222020 AACTCGTTGAGTTGTGTTCCGAGTTCATTATGGATGCGAA-CACCCG
1 AACTCGTTGAGTTGTGTTCCGAGTTCATTATGGATGC-AAGCACCCG
*
84222066 AGCTCGTTGAGTTGTGTTCCGAGTTCATTATGG
1 AACTCGTTGAGTTGTGTTCCGAGTTCATTATGG
84222099 GTGAGATTAT
Statistics
Matches: 73, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
46 46 0.63
47 27 0.37
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.33
Consensus pattern (46 bp):
AACTCGTTGAGTTGTGTTCCGAGTTCATTATGGATGCAAGCACCCG
Found at i:84223991 original size:89 final size:87
Alignment explanation
Indices: 84223828--84224064 Score: 243
Period size: 87 Copynumber: 2.7 Consensus size: 87
84223818 ATTCATGTCA
* * *
84223828 TTCAATGGATTTTATTCCATTTT--TTATTATTTCTAAACAGGA-AATTAAAGTTAAAA-AAAAT
1 TTCAATGGATTTTATT-CATTTTGATT-TTATTTCTAAAAACGAGAATTAAAATTAAAATAAAAT
* *
84223889 CCGTTTCGGGATTTATTACCACCG
64 CCGTTTCAGGATTTACTACCACCG
* *
84223913 TTCAATGGATTTTATTCTGATTTTGATTTTATTTCTAAAAATGAGTATTAAAATTAAAATAAAAT
1 TTCAATGGATTTTATTC--ATTTTGATTTTATTTCTAAAAACGAGAATTAAAATTAAAATAAAAT
* * * *
84223978 CTGTTTCAGGATTTACTCCCGCCT
64 CCGTTTCAGGATTTACTACCACCG
* * * *
84224002 TTCAACGGA-TTTATTACATTTTGATTTTGTTGCCAAAAACGAGAAATTAAAATT-AAATAAAAT
1 TTCAATGGATTTTATT-CATTTTGATTTTATTTCTAAAAACGAG-AATTAAAATTAAAATAAAAT
84224065 TTATTTTGGA
Statistics
Matches: 128, Mismatches: 16, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
84 1 0.01
85 16 0.12
86 5 0.04
87 45 0.35
88 29 0.23
89 32 0.25
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.41
Consensus pattern (87 bp):
TTCAATGGATTTTATTCATTTTGATTTTATTTCTAAAAACGAGAATTAAAATTAAAATAAAATCC
GTTTCAGGATTTACTACCACCG
Found at i:84234356 original size:52 final size:52
Alignment explanation
Indices: 84234277--84234377 Score: 141
Period size: 52 Copynumber: 1.9 Consensus size: 52
84234267 ACAAAACTTA
* * *
84234277 GAAAATTTTTGCTATGAATAGAGGTCACACGC-CTGTGTGGCTTGGGACACGC
1 GAAAATTTTTGCTATGAACAGAGGTCACACGCTC-ATGTGGCTTAGGACACGC
* *
84234329 GAAATTTTTTGCTATGAACAGGGGTCACACGCTCATGTGGCTTAGGACA
1 GAAAATTTTTGCTATGAACAGAGGTCACACGCTCATGTGGCTTAGGACA
84234378 TGCCCGTGTG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
52 42 0.98
53 1 0.02
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.28
Consensus pattern (52 bp):
GAAAATTTTTGCTATGAACAGAGGTCACACGCTCATGTGGCTTAGGACACGC
Found at i:84238666 original size:14 final size:14
Alignment explanation
Indices: 84238643--84238694 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
84238633 ACACAATGCA
* *
84238643 AAAAGCCAACACAG
1 AAAAGACAACAAAG
84238657 AAAAGACAACAAAG
1 AAAAGACAACAAAG
* * *
84238671 AAAAAATAACATAG
1 AAAAGACAACAAAG
84238685 AAACAGACAA
1 AAA-AGACAA
84238695 AGAGTAGAAA
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
14 26 0.87
15 4 0.13
ACGTcount: A:0.67, C:0.17, G:0.12, T:0.04
Consensus pattern (14 bp):
AAAAGACAACAAAG
Found at i:84239770 original size:26 final size:26
Alignment explanation
Indices: 84239741--84239793 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
84239731 AGTCTTTTCT
* *
84239741 TATATTATTCATTTTAAATTGTTTTA
1 TATAGTATTCATTTCAAATTGTTTTA
84239767 TATAGTATTCATTTCAAATTGTTTTA
1 TATAGTATTCATTTCAAATTGTTTTA
84239793 T
1 T
84239794 TGTACATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.58
Consensus pattern (26 bp):
TATAGTATTCATTTCAAATTGTTTTA
Found at i:84239845 original size:23 final size:24
Alignment explanation
Indices: 84239800--84239855 Score: 78
Period size: 23 Copynumber: 2.4 Consensus size: 24
84239790 TTATTGTACA
** *
84239800 TTATTTTAAGTTATTTTTTATTTT
1 TTATTTTAAGTTATTTTGCATTTG
84239824 TTATTTTAAGTT-TTTTGCATTTG
1 TTATTTTAAGTTATTTTGCATTTG
84239847 TTATTTTAA
1 TTATTTTAA
84239856 ACTATTTTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 17 0.59
24 12 0.41
ACGTcount: A:0.21, C:0.02, G:0.07, T:0.70
Consensus pattern (24 bp):
TTATTTTAAGTTATTTTGCATTTG
Found at i:84239902 original size:25 final size:25
Alignment explanation
Indices: 84239847--84239915 Score: 68
Period size: 29 Copynumber: 2.6 Consensus size: 25
84239837 TTTGCATTTG
84239847 TTATTTTAAACTATTTTACCTATTAT
1 TTATTTTAAACTATTTTA-CTATTAT
*
84239873 TTATTTTAAA-TATTTTTTATATATTCTAT
1 TTATTTTAAACTA--TTTTA-CTA-T-TAT
84239902 TTATTTTAAACTAT
1 TTATTTTAAACTAT
84239916 ATATATATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
25 2 0.06
26 10 0.28
27 7 0.19
28 2 0.06
29 13 0.36
30 2 0.06
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (25 bp):
TTATTTTAAACTATTTTACTATTAT
Found at i:84239927 original size:33 final size:29
Alignment explanation
Indices: 84239867--84239950 Score: 89
Period size: 33 Copynumber: 2.8 Consensus size: 29
84239857 CTATTTTACC
*
84239867 TATTATTTATTTTAAATATTTTTTATATA
1 TATTATTTATTTTAAATATTTTATATATA
84239896 T-TCTATTTATTTTAAACTATATATATATATATA
1 TAT-TATTTATTTTAAA-TAT-T-T-TATATATA
* *
84239929 TATTATCTATTTTAAATTTTTT
1 TATTATTTATTTTAAATATTTT
84239951 TATGTTATTT
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
28 1 0.02
29 15 0.33
30 4 0.09
31 2 0.04
32 3 0.07
33 20 0.43
34 1 0.02
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.62
Consensus pattern (29 bp):
TATTATTTATTTTAAATATTTTATATATA
Found at i:84241624 original size:10 final size:10
Alignment explanation
Indices: 84241609--84241635 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
84241599 TCAAGACGTA
84241609 GCTACTCGGT
1 GCTACTCGGT
84241619 GCTACTCGGT
1 GCTACTCGGT
84241629 GCTACTC
1 GCTACTC
84241636 ACACAAGCTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.11, C:0.33, G:0.26, T:0.30
Consensus pattern (10 bp):
GCTACTCGGT
Found at i:84252496 original size:19 final size:19
Alignment explanation
Indices: 84252469--84252521 Score: 58
Period size: 17 Copynumber: 2.9 Consensus size: 19
84252459 ATGAACATAT
* *
84252469 TATATAAATAATATAAAAT
1 TATAAAAATAATATAAAAC
*
84252488 TTTAAAAAT-ATA-AAAAC
1 TATAAAAATAATATAAAAC
84252505 TATAAAAA-AATATAAAA
1 TATAAAAATAATATAAAA
84252522 GAGATTTTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
17 14 0.50
18 7 0.25
19 7 0.25
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (19 bp):
TATAAAAATAATATAAAAC
Found at i:84258188 original size:18 final size:18
Alignment explanation
Indices: 84258167--84258201 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
84258157 CTCTCTGGAC
* *
84258167 ATTTGGGTTTTATTTTGA
1 ATTTGGATTTTAATTTGA
84258185 ATTTGGATTTTAATTTG
1 ATTTGGATTTTAATTTG
84258202 GGATATCTTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.20, C:0.00, G:0.20, T:0.60
Consensus pattern (18 bp):
ATTTGGATTTTAATTTGA
Found at i:84263870 original size:29 final size:29
Alignment explanation
Indices: 84263838--84263898 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
84263828 TGGTATGTCG
* *
84263838 TGTGTGACACACGGT-CGTGTAATAGGCCT
1 TGTGCGACACAC-GTCCGTGTAACAGGCCT
*
84263867 TGTGCGACACACGTCCGTGTAACAGGTCT
1 TGTGCGACACACGTCCGTGTAACAGGCCT
84263896 TGT
1 TGT
84263899 AATAGAGTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 2 0.07
29 26 0.93
ACGTcount: A:0.20, C:0.23, G:0.30, T:0.28
Consensus pattern (29 bp):
TGTGCGACACACGTCCGTGTAACAGGCCT
Found at i:84264739 original size:18 final size:18
Alignment explanation
Indices: 84264716--84264750 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
84264706 CTCTCTAGAC
* *
84264716 ATTTGGGTTTTATTTTGA
1 ATTTGGATTTTAATTTGA
84264734 ATTTGGATTTTAATTTG
1 ATTTGGATTTTAATTTG
84264751 GGATATCTTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.20, C:0.00, G:0.20, T:0.60
Consensus pattern (18 bp):
ATTTGGATTTTAATTTGA
Found at i:84266798 original size:24 final size:25
Alignment explanation
Indices: 84266766--84266815 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 25
84266756 TAATAATAGA
*
84266766 ATATAAATAAAAATAATTAT-TAAT
1 ATATAAATAAAAATAAATATATAAT
*
84266790 ATATAAATAAAGATAAATATATAAT
1 ATATAAATAAAAATAAATATATAAT
84266815 A
1 A
84266816 CAAGTTTGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 18 0.78
25 5 0.22
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (25 bp):
ATATAAATAAAAATAAATATATAAT
Found at i:84266883 original size:19 final size:19
Alignment explanation
Indices: 84266861--84267079 Score: 82
Period size: 20 Copynumber: 10.9 Consensus size: 19
84266851 TAAAAATGTA
*
84266861 TAATAATATA-AAAATGACT
1 TAATAATATATAAAAT-AAT
84266880 TAATAATATATAAAATAAT
1 TAATAATATATAAAATAAT
*
84266899 T-ATAATATATAATATAA-
1 TAATAATATATAAAATAAT
*
84266916 -AAGCATATATATAAAAATAA-
1 TAA-TA-ATATAT-AAAATAAT
84266936 TATATAATATATAATAA-ACA-
1 TA-ATAATATATAA-AATA-AT
84266956 T-ATAATATAATAATAATATAT
1 TAATAATAT-ATAA-AATA-AT
* *
84266977 AAATAATGATGTAAAATAA-
1 TAATAAT-ATATAAAATAAT
*
84266996 TAATAACT-TGTGAAAAATAA-
1 TAATAA-TATAT--AAAATAAT
*
84267016 TATATAATAAATAATAATAAT
1 TA-ATAATATATAA-AATAAT
84267037 ATAAATAATATATAATAAAATAATT
1 -T-AAT-A-ATAT-ATAAAATAA-T
* *
84267062 TTATAATATATAATATAA
1 TAATAATATATAAAATAA
84267080 AAATAAGGTT
Statistics
Matches: 159, Mismatches: 14, Indels: 53
0.70 0.06 0.23
Matches are distributed among these distances:
17 1 0.01
18 26 0.16
19 36 0.23
20 48 0.30
21 15 0.09
22 13 0.08
23 6 0.04
24 9 0.06
25 5 0.03
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (19 bp):
TAATAATATATAAAATAAT
Found at i:84266886 original size:3 final size:3
Alignment explanation
Indices: 84266880--84267060 Score: 78
Period size: 3 Copynumber: 59.3 Consensus size: 3
84266870 AAAAATGACT
* **
84266880 TAA TAA TATA TAA -AA TAA TTA TAA TATA TAA T-A TAA -AA GCA T-A
1 TAA TAA TA-A TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA
*
84266923 TATA TAA AAA TAA TATA TAA TATA TAA TAA -ACA T-A TAA T-A TAA TAA
1 TA-A TAA TAA TAA TA-A TAA TA-A TAA TAA TA-A TAA TAA TAA TAA TAA
* * ** *
84266969 TAA TATA TAAA TAA TGA T-G TAA -AA TAA TAA TAA CTTG TGAA AAA TAA
1 TAA TA-A T-AA TAA TAA TAA TAA TAA TAA TAA TAA -TAA T-AA TAA TAA
84267016 TATA TAA TAAA TAA TAA TAA T-A TAAA TAA TATA TAA TAA -AA TAA T
1 TA-A TAA T-AA TAA TAA TAA TAA T-AA TAA TA-A TAA TAA TAA TAA T
84267061 TTTATAATAT
Statistics
Matches: 138, Mismatches: 15, Indels: 50
0.68 0.07 0.25
Matches are distributed among these distances:
2 20 0.14
3 86 0.62
4 31 0.22
5 1 0.01
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:84266935 original size:25 final size:25
Alignment explanation
Indices: 84266905--84266965 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 25
84266895 TAATTATAAT
84266905 ATATAATATAAAAGCATATATATAAA-
1 ATATAATATAAAA-CATATA-ATAAAC
* *
84266931 A-ATAATATATAATATATAATAAAC
1 ATATAATATAAAACATATAATAAAC
84266955 ATATAATATAA
1 ATATAATATAA
84266966 TAATAATATA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
23 5 0.17
24 6 0.20
25 18 0.60
26 1 0.03
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (25 bp):
ATATAATATAAAACATATAATAAAC
Found at i:84266937 original size:50 final size:47
Alignment explanation
Indices: 84266881--84267085 Score: 133
Period size: 47 Copynumber: 4.4 Consensus size: 47
84266871 AAAATGACTT
*
84266881 AATAATATATAAAATAATTATAATATATAATATAAAAGCATATATATAAA
1 AATAATATATAAAATAATTATAACATATAATATAAAA--ATA-ATATAAA
* *
84266931 AATAATATATAATATATAA-TA-AACATATAATATAATAATAATATATA
1 AATAATATATAA-A-ATAATTATAACATATAATATAAAAATAATATAAA
* * * * *
84266978 AATAATGATGTAAAATAATAATAACTTGTGAA-A-AATAAT-ATATAATA
1 AATAAT-ATATAAAATAATTATAACATAT-AATATAAAAATAATATAA-A
* * **
84267025 AATAATA-ATAATATAA--ATAATATATAATA-AAATAATTTTATAATA
1 AATAATATATAAAATAATTATAACATATAATATAAA-AATAATATAA-A
*
84267070 TATAATATA-AAAATAA
1 AATAATATATAAAATAA
84267086 GGTTAAAAAT
Statistics
Matches: 127, Mismatches: 17, Indels: 27
0.74 0.10 0.16
Matches are distributed among these distances:
42 2 0.02
43 9 0.07
44 3 0.02
45 26 0.20
46 11 0.09
47 27 0.21
48 14 0.11
49 2 0.02
50 26 0.20
51 3 0.02
52 4 0.03
ACGTcount: A:0.61, C:0.01, G:0.02, T:0.35
Consensus pattern (47 bp):
AATAATATATAAAATAATTATAACATATAATATAAAAATAATATAAA
Found at i:84269390 original size:210 final size:210
Alignment explanation
Indices: 84268622--84269388 Score: 1075
Period size: 210 Copynumber: 3.7 Consensus size: 210
84268612 AAATCTGCTT
* * *
84268622 CTTCGATTTGTTCTCTGATAATACAGAGATGCCAAA-CTATCTTAGATTTGCTTCATCGTAAGCA
1 CTTCGATTTGTTCTCTGACAATACAGAGATGACAAATC-ATCTTAGATTTGCTTCATCGTAAACA
* * * * ** * ** * ***
84268686 CGTGAAAGCCAAATCAGCTATGTCTTCAATTTGTTCCTTG-TAAGCACA-AG-GAT--GCTAAAT
65 CGTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCCGCCAAATACAGAGAGATAAGATCTGT
* * * * * *
84268746 CATCTTGGATCTTACTTCAGTC-TAATCGTCTGAAGGTCAGATCTGCTGTGTATCTACTCTCCAT
130 CATCTTGGATC-TACTTCAG-CGTAAACATCTGAAGGTAAGATCTGCTATGTGTCTGCTCTCCAT
84268810 TGAAGTGGAGATGCCAGA
193 TGAAGTGGAGATGCCAGA
*
84268828 CTTCGATTTGTTCTCTGACAATGCAGAGATGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
* * *
84268893 GTGAAAGCCAAATCAGCTATGTCTTCGATCTGCTCCCCACCGAATACAGAGAGATAAGATCTGTC
66 GTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCCGCCAAATACAGAGAGATAAGATCTGTC
* * *
84268958 ATCTTGGATCTACTTCAGCGTAAACATCTAAAGGTGAGATCTGCTATGTGTCTGTTCTCCATTGA
131 ATCTTGGATCTACTTCAGCGTAAACATCTGAAGGTAAGATCTGCTATGTGTCTGCTCTCCATTGA
84269023 AGTGGAGATGCCAGA
196 AGTGGAGATGCCAGA
*
84269038 CTTTGATTTGTTCTCTGACAATACAGAGATGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
**
84269103 GTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCCGCTGAATACAGAGAGATAAGATCTGTC
66 GTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCCGCCAAATACAGAGAGATAAGATCTGTC
* * **
84269168 ATCTTAGATCTGCTTCAGCGTAAACATCTGAAGGTAAGATCTGCTATGTGTCTGC-CTTCCATCA
131 ATCTTGGATCTACTTCAGCGTAAACATCTGAAGGTAAGATCTGCTATGTGTCTGCTC-TCCATTG
*
84269232 AAGTGGAAATGCCAGA
195 AAGTGGAGATGCCAGA
* *
84269248 CTTCGATTTGTTCTCT-AGCAATACAGAGACGACAAATCATCTTAGATTTGCTTTATCGTAAACA
1 CTTCGATTTGTTCTCTGA-CAATACAGAGATGACAAATCATCTTAGATTTGCTTCATCGTAAACA
84269312 CGTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCCGCCAAATACAGAGAGATAAGATCTGT
65 CGTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCCGCCAAATACAGAGAGATAAGATCTGT
84269377 CATCTTGGATCT
130 CATCTTGGATCT
84269389 GCCCTGATGA
Statistics
Matches: 507, Mismatches: 45, Indels: 14
0.90 0.08 0.02
Matches are distributed among these distances:
206 92 0.18
207 5 0.01
208 2 0.00
209 6 0.01
210 388 0.77
211 14 0.03
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.31
Consensus pattern (210 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
GTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCCGCCAAATACAGAGAGATAAGATCTGTC
ATCTTGGATCTACTTCAGCGTAAACATCTGAAGGTAAGATCTGCTATGTGTCTGCTCTCCATTGA
AGTGGAGATGCCAGA
Found at i:84281202 original size:26 final size:25
Alignment explanation
Indices: 84281164--84281213 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
84281154 AAACAAATAA
* * *
84281164 TAAAATGTGATATTTAATAATAAATT
1 TAAAATATAATATATAATAA-AAATT
84281190 TAAAATATAATATATAATAAAAAT
1 TAAAATATAATATATAATAAAAAT
84281214 GTATTTATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (25 bp):
TAAAATATAATATATAATAAAAATT
Found at i:84281452 original size:24 final size:25
Alignment explanation
Indices: 84281420--84281469 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 25
84281410 TAATAATAGA
*
84281420 ATATAAATAAAAATAATTAT-TAAT
1 ATATAAATAAAAATAAATATATAAT
*
84281444 ATATAAATAAAGATAAATATATAAT
1 ATATAAATAAAAATAAATATATAAT
84281469 A
1 A
84281470 CAAGTTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 18 0.78
25 5 0.22
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (25 bp):
ATATAAATAAAAATAAATATATAAT
Found at i:84281498 original size:3 final size:3
Alignment explanation
Indices: 84281485--84281714 Score: 79
Period size: 3 Copynumber: 74.3 Consensus size: 3
84281475 TTAAAACCTT
* * * * *
84281485 TAA TGA TAA TAA TATA TAGA TAA AAA TGTA TAA TAA T-A TAA AAA TGACT
1 TAA TAA TAA TAA TA-A TA-A TAA TAA T-AA TAA TAA TAA TAA TAA T-A-A
* **
84281534 TAA TAA TATA TAA -AA TAA TTA TAA TATA TAA T-A TAA -AA GCA T-A
1 TAA TAA TA-A TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA
*
84281577 TATA TAA AAA TAA TATA TAA TATA TAA TAA -ACA T-A TAA T-A TAA TAA
1 TA-A TAA TAA TAA TA-A TAA TA-A TAA TAA TA-A TAA TAA TAA TAA TAA
* * ** *
84281623 TAA TATA TAAA TAA TGA T-G TAA -AA TAA TAA TAA CTTG TGAA AAA TAA
1 TAA TA-A T-AA TAA TAA TAA TAA TAA TAA TAA TAA -TAA T-AA TAA TAA
84281670 TATA TAA TAAA TAA TAA TAA T-A TAAA TAA TATA TAA TAA -AA TAA T
1 TA-A TAA T-AA TAA TAA TAA TAA T-AA TAA TA-A TAA TAA TAA TAA T
84281715 TTTATAATAT
Statistics
Matches: 171, Mismatches: 26, Indels: 60
0.67 0.10 0.23
Matches are distributed among these distances:
2 22 0.13
3 106 0.62
4 41 0.24
5 2 0.01
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:84281537 original size:19 final size:19
Alignment explanation
Indices: 84281515--84281733 Score: 82
Period size: 20 Copynumber: 10.9 Consensus size: 19
84281505 TAAAAATGTA
*
84281515 TAATAATATA-AAAATGACT
1 TAATAATATATAAAAT-AAT
84281534 TAATAATATATAAAATAAT
1 TAATAATATATAAAATAAT
*
84281553 T-ATAATATATAATATAA-
1 TAATAATATATAAAATAAT
*
84281570 -AAGCATATATATAAAAATAA-
1 TAA-TA-ATATAT-AAAATAAT
84281590 TATATAATATATAATAA-ACA-
1 TA-ATAATATATAA-AATA-AT
84281610 T-ATAATATAATAATAATATAT
1 TAATAATAT-ATAA-AATA-AT
* *
84281631 AAATAATGATGTAAAATAA-
1 TAATAAT-ATATAAAATAAT
*
84281650 TAATAACT-TGTGAAAAATAA-
1 TAATAA-TATAT--AAAATAAT
*
84281670 TATATAATAAATAATAATAAT
1 TA-ATAATATATAA-AATAAT
84281691 ATAAATAATATATAATAAAATAATT
1 -T-AAT-A-ATAT-ATAAAATAA-T
* *
84281716 TTATAATATATAATATAA
1 TAATAATATATAAAATAA
84281734 AAATAAGGTT
Statistics
Matches: 159, Mismatches: 14, Indels: 53
0.70 0.06 0.23
Matches are distributed among these distances:
17 1 0.01
18 26 0.16
19 36 0.23
20 48 0.30
21 15 0.09
22 13 0.08
23 6 0.04
24 9 0.06
25 5 0.03
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (19 bp):
TAATAATATATAAAATAAT
Found at i:84281589 original size:25 final size:25
Alignment explanation
Indices: 84281559--84281619 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 25
84281549 TAATTATAAT
84281559 ATATAATATAAAAGCATATATATAAA-
1 ATATAATATAAAA-CATATA-ATAAAC
* *
84281585 A-ATAATATATAATATATAATAAAC
1 ATATAATATAAAACATATAATAAAC
84281609 ATATAATATAA
1 ATATAATATAA
84281620 TAATAATATA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
23 5 0.17
24 6 0.20
25 18 0.60
26 1 0.03
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (25 bp):
ATATAATATAAAACATATAATAAAC
Found at i:84281591 original size:50 final size:47
Alignment explanation
Indices: 84281535--84281739 Score: 133
Period size: 47 Copynumber: 4.4 Consensus size: 47
84281525 AAAATGACTT
*
84281535 AATAATATATAAAATAATTATAATATATAATATAAAAGCATATATATAAA
1 AATAATATATAAAATAATTATAACATATAATATAAAA--ATA-ATATAAA
* *
84281585 AATAATATATAATATATAA-TA-AACATATAATATAATAATAATATATA
1 AATAATATATAA-A-ATAATTATAACATATAATATAAAAATAATATAAA
* * * * *
84281632 AATAATGATGTAAAATAATAATAACTTGTGAA-A-AATAAT-ATATAATA
1 AATAAT-ATATAAAATAATTATAACATAT-AATATAAAAATAATATAA-A
* * **
84281679 AATAATA-ATAATATAA--ATAATATATAATA-AAATAATTTTATAATA
1 AATAATATATAAAATAATTATAACATATAATATAAA-AATAATATAA-A
*
84281724 TATAATATA-AAAATAA
1 AATAATATATAAAATAA
84281740 GGTTAAAAAT
Statistics
Matches: 127, Mismatches: 17, Indels: 27
0.74 0.10 0.16
Matches are distributed among these distances:
42 2 0.02
43 9 0.07
44 3 0.02
45 26 0.20
46 11 0.09
47 27 0.21
48 14 0.11
49 2 0.02
50 26 0.20
51 3 0.02
52 4 0.03
ACGTcount: A:0.61, C:0.01, G:0.02, T:0.35
Consensus pattern (47 bp):
AATAATATATAAAATAATTATAACATATAATATAAAAATAATATAAA
Found at i:84292090 original size:4 final size:4
Alignment explanation
Indices: 84292077--84292107 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
84292067 TATATAACAT
*
84292077 AAGA ATGA AAGA AAGA AAGA AAGA AAGA AAG
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAG
84292108 GGTGGTGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.71, C:0.00, G:0.26, T:0.03
Consensus pattern (4 bp):
AAGA
Found at i:84292168 original size:1 final size:1
Alignment explanation
Indices: 84292158--84292196 Score: 60
Period size: 1 Copynumber: 39.0 Consensus size: 1
84292148 TCTTCTGTTC
* *
84292158 TTTTTCTTTTTTTTTTTTTTTTTTTTTTTTTCTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
84292197 GCTGTAATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.00, C:0.05, G:0.00, T:0.95
Consensus pattern (1 bp):
T
Found at i:84303089 original size:3 final size:3
Alignment explanation
Indices: 84303081--84303127 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
84303071 TTTTATTAAA
84303081 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
84303128 GAGCAGAGTG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:84303696 original size:20 final size:19
Alignment explanation
Indices: 84303673--84303725 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 19
84303663 ATATATATTT
* *
84303673 AAAAAATCTAAAAATTATAA
1 AAAAAATATAAAAA-AATAA
*
84303693 AAAATATATAAAGAAAATAA
1 AAAAAATATAAA-AAAATAA
*
84303713 AAAAAATTTAAAA
1 AAAAAATATAAAA
84303726 TTTTCCTAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
19 1 0.04
20 24 0.89
21 2 0.07
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.23
Consensus pattern (19 bp):
AAAAAATATAAAAAAATAA
Found at i:84305271 original size:28 final size:27
Alignment explanation
Indices: 84305234--84305297 Score: 65
Period size: 28 Copynumber: 2.3 Consensus size: 27
84305224 ACATACAAAC
*
84305234 AAATCTTAAAATAAGTATTATATGAAAAG
1 AAAT-TTAAAATAAGTAATATAT-AAAAG
* * *
84305263 AAATTTAAATTTAGTAATATATAAATG
1 AAATTTAAAATAAGTAATATATAAAAG
*
84305290 AATTTTAA
1 AAATTTAA
84305298 CACAAATATT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 11 0.37
28 15 0.50
29 4 0.13
ACGTcount: A:0.53, C:0.02, G:0.08, T:0.38
Consensus pattern (27 bp):
AAATTTAAAATAAGTAATATATAAAAG
Found at i:84305521 original size:22 final size:22
Alignment explanation
Indices: 84305475--84305516 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
84305465 CTAAAGTATA
*
84305475 AAATTATATAAGAGAAATCAAT
1 AAATTATATAAGACAAATCAAT
84305497 AAATTATAT-A-ACAAATCAAT
1 AAATTATATAAGACAAATCAAT
84305517 GTAAAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 1 0.05
22 9 0.47
ACGTcount: A:0.60, C:0.07, G:0.05, T:0.29
Consensus pattern (22 bp):
AAATTATATAAGACAAATCAAT
Found at i:84307138 original size:177 final size:177
Alignment explanation
Indices: 84306927--84307246 Score: 478
Period size: 177 Copynumber: 1.8 Consensus size: 177
84306917 GTAGTAGCTT
* * *
84306927 AAATCTGTTCCATTGCCGATACATGGAGATAAGATTCACCGTTTTCGATCTGCTCCACTACTGCT
1 AAATCTGATCCATTGCCGATACATGGAGATAAGATTCACCGTCTTCGATCTACTCCACTACTGCT
* * * * * ** *
84306992 TAGGGAGCTAAGATCTGTAATTTTTAGTCTGCTTCTTTACTACCCCAGGAAGATAAAACTAGTAT
66 TAAGGAGATAAGATCTGTAATTTTCAGTCTCCTCCACTACAACCCCAGGAAGATAAAACTAGTAT
84307057 CTTCAGCCTGTTCTCTTGCTACCTCAGAGAAATAAGGCTGGTGGCTA
131 CTTCAGCCTGTTCTCTTGCTACCTCAGAGAAATAAGGCTGGTGGCTA
* *
84307104 AAATCTGATCCATTGCTGATACATGGAGATAAGATTCATCGTCTTCGATCTACTCCACTACTGCT
1 AAATCTGATCCATTGCCGATACATGGAGATAAGATTCACCGTCTTCGATCTACTCCACTACTGCT
* * * *
84307169 TAAGGAGATAAGATCTGTAATTTTCAGTCTCCTCCACTACAACTCCAGGGAGATAAGACTTGTAT
66 TAAGGAGATAAGATCTGTAATTTTCAGTCTCCTCCACTACAACCCCAGGAAGATAAAACTAGTAT
*
84307234 CTTGAGCCTGTTC
131 CTTCAGCCTGTTC
84307247 CACTGCAACT
Statistics
Matches: 125, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
177 125 1.00
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (177 bp):
AAATCTGATCCATTGCCGATACATGGAGATAAGATTCACCGTCTTCGATCTACTCCACTACTGCT
TAAGGAGATAAGATCTGTAATTTTCAGTCTCCTCCACTACAACCCCAGGAAGATAAAACTAGTAT
CTTCAGCCTGTTCTCTTGCTACCTCAGAGAAATAAGGCTGGTGGCTA
Found at i:84307437 original size:44 final size:45
Alignment explanation
Indices: 84307327--84307498 Score: 131
Period size: 45 Copynumber: 3.8 Consensus size: 45
84307317 TTATTTATAG
* * *
84307327 CTTCAATCTATTCCACTGCAACTTCAGGGAAATAAGATTCGCTAT
1 CTTCAATCTACTCCACTGCAACTTCAAGGAGATAAGATTCGCTAT
* *
84307372 CTTCAGTCTGCTCCA-TCGCAACTTCAAGGAGATAAGACTT-G-TCA-
1 CTTCAATCTACTCCACT-GCAACTTCAAGGAGATAAGA-TTCGCT-AT
* * *
84307416 CTTCAACCTACTCCACTGCAACTTC-AGGAAGATAAGGTTTG-TAAT
1 CTTCAATCTACTCCACTGCAACTTCAAGG-AGATAAGATTCGCT-AT
** * ** *
84307461 CTTTGATCTATTCTGCTGCAACTTCAGGGAGATAAGAT
1 CTTCAATCTACTCCACTGCAACTTCAAGGAGATAAGAT
84307499 CTTACTTCAC
Statistics
Matches: 101, Mismatches: 18, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
43 5 0.05
44 32 0.32
45 60 0.59
46 4 0.04
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (45 bp):
CTTCAATCTACTCCACTGCAACTTCAAGGAGATAAGATTCGCTAT
Found at i:84307666 original size:64 final size:64
Alignment explanation
Indices: 84307565--84307692 Score: 220
Period size: 64 Copynumber: 2.0 Consensus size: 64
84307555 TCATATATTT
**
84307565 ATGCTTATGCCAAATAATTAGGATGTTATGATCGAAATGAATCAAATACTCCTAACTAGATGTG
1 ATGCTTATGCCAAATAATTAGGATACTATGATCGAAATGAATCAAATACTCCTAACTAGATGTG
* *
84307629 ATGCTTATGTCAAATAATTAGGATACTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
1 ATGCTTATGCCAAATAATTAGGATACTATGATCGAAATGAATCAAATACTCCTAACTAGATGTG
84307693 TTATGAATGA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (64 bp):
ATGCTTATGCCAAATAATTAGGATACTATGATCGAAATGAATCAAATACTCCTAACTAGATGTG
Found at i:84312315 original size:21 final size:21
Alignment explanation
Indices: 84312273--84312316 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
84312263 GAAATGCAAG
* *
84312273 AAAAGAATATTTGCTTAAAAT
1 AAAAGAATATTTACTCAAAAT
*
84312294 AAAAGAATATTTACTCAGAAT
1 AAAAGAATATTTACTCAAAAT
84312315 AA
1 AA
84312317 GACATAAAGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.55, C:0.07, G:0.09, T:0.30
Consensus pattern (21 bp):
AAAAGAATATTTACTCAAAAT
Found at i:84318509 original size:71 final size:71
Alignment explanation
Indices: 84318425--84318588 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
84318415 CGATTTGTCT
84318425 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
84318490 CTTTCA
66 CTTTCA
84318496 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
84318561 CTTTCA
66 CTTTCA
84318567 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
84318589 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:84318626 original size:71 final size:70
Alignment explanation
Indices: 84318425--84318622 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
84318415 CGATTTGTCT
* * * *
84318425 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
84318490 CTTTCA
65 CTTTCA
* * * *
84318496 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
84318561 CTTTCA
65 CTTTCA
* *
84318567 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
84318623 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:84326064 original size:71 final size:71
Alignment explanation
Indices: 84325980--84326143 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
84325970 CGATTTGTCT
84325980 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
84326045 CTTTCA
66 CTTTCA
84326051 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
84326116 CTTTCA
66 CTTTCA
84326122 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
84326144 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:84326181 original size:71 final size:70
Alignment explanation
Indices: 84325980--84326177 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
84325970 CGATTTGTCT
* * * *
84325980 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
84326045 CTTTCA
65 CTTTCA
* * * *
84326051 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
84326116 CTTTCA
65 CTTTCA
* *
84326122 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
84326178 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:84328476 original size:3 final size:3
Alignment explanation
Indices: 84328470--84328627 Score: 62
Period size: 3 Copynumber: 52.7 Consensus size: 3
84328460 TTTTTTTACA
* * *
84328470 TAT TAT TAA CAT TAT TAC TAT TAT T-T TAT T-T CTAT TAT TAT CT-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT -TAT
* * * * * *
84328514 TAT TAT TAC TGT TAG TAT TAT T-T TCAT TAC TAT TAT TTT TAT TAA
1 TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT
* * * * *
84328559 CA- TAT TAAT TAT T-T TCT AACG TAT TAT TAT TACT AAT TAT TAT TAT
1 TAT TAT T-AT TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT TAT
84328605 T-T CTAGT T-T TAT TAT TAT TAT TA
1 TAT -TA-T TAT TAT TAT TAT TAT TA
84328628 ACATTAGTGT
Statistics
Matches: 113, Mismatches: 26, Indels: 32
0.66 0.15 0.19
Matches are distributed among these distances:
2 12 0.11
3 89 0.79
4 11 0.10
5 1 0.01
ACGTcount: A:0.30, C:0.08, G:0.03, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:84328508 original size:32 final size:34
Alignment explanation
Indices: 84328456--84328518 Score: 85
Period size: 32 Copynumber: 1.9 Consensus size: 34
84328446 TCGTTTATTT
*
84328456 TTATTTTTTTTACATATTATTAACATTATTACTA
1 TTATTTTATTTACATATTATTAACATTATTACTA
* *
84328490 TTATTTTATTT-C-TATTATTATCTTTATTA
1 TTATTTTATTTACATATTATTAACATTATTA
84328519 TTACTGTTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 15 0.58
33 1 0.04
34 10 0.38
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (34 bp):
TTATTTTATTTACATATTATTAACATTATTACTA
Found at i:84328657 original size:17 final size:16
Alignment explanation
Indices: 84328635--84328666 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
84328625 TTAACATTAG
84328635 TGTATGTATATTATATA
1 TGTATGTATA-TATATA
84328652 TGTATGTATATATAT
1 TGTATGTATATATAT
84328667 TTACATATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.53
Consensus pattern (16 bp):
TGTATGTATATATATA
Found at i:84328881 original size:14 final size:16
Alignment explanation
Indices: 84328852--84328906 Score: 56
Period size: 19 Copynumber: 3.2 Consensus size: 16
84328842 ATGTTATGTA
84328852 TATATGTTTTTAATAT
1 TATATGTTTTTAATAT
*
84328868 TATATTTTTTATATATTAT
1 TATATGTTTT-TA-A-TAT
*
84328887 TATATATATTTTAATAT
1 TATATGT-TTTTAATAT
84328904 TAT
1 TAT
84328907 TAGTTATATA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
16 9 0.27
17 8 0.24
18 2 0.06
19 11 0.33
20 3 0.09
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.64
Consensus pattern (16 bp):
TATATGTTTTTAATAT
Found at i:84328895 original size:23 final size:23
Alignment explanation
Indices: 84328868--84328986 Score: 81
Period size: 20 Copynumber: 5.2 Consensus size: 23
84328858 TTTTTAATAT
84328868 TATATTTTTTATATATTATTATA
1 TATATTTTTTATATATTATTATA
84328891 TATA--TTTTA-ATATTATTAGTTA
1 TATATTTTTTATATATTATTA--TA
* *
84328913 TATATTTTTTATACTGTTA-TATG
1 TATATTTTTTATA-TATTATTATA
* *
84328936 TATA-TTTCTA-ATATTA-TATTG
1 TATATTTTTTATATATTATTA-TA
* *
84328957 TATATTTCTAATACTATTATTTATA
1 TATATTTTTTATA-TATTA-TTATA
84328982 TATAT
1 TATAT
84328987 ATATATATGT
Statistics
Matches: 76, Mismatches: 8, Indels: 22
0.72 0.08 0.21
Matches are distributed among these distances:
20 15 0.20
21 12 0.16
22 14 0.18
23 10 0.13
24 10 0.13
25 9 0.12
26 6 0.08
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (23 bp):
TATATTTTTTATATATTATTATA
Found at i:84328933 original size:43 final size:42
Alignment explanation
Indices: 84328864--84328982 Score: 125
Period size: 44 Copynumber: 2.8 Consensus size: 42
84328854 TATGTTTTTA
*
84328864 ATATTATAT-TTTTTATATATTATTATATATATTT-TAATATT
1 ATATTATATATTTTT-TATACTATTATATATATTTCTAATATT
*
84328905 ATTAGTTATATATTTTTTATACTGTTATATGTATATTTCTAATATT
1 A-TA-TTATATATTTTTTATACTATTATA--TATATTTCTAATATT
* * * *
84328951 ATATTGTATATTTCTAATACTATTATTTATAT
1 ATATTATATATTTTTTATACTATTATATATAT
84328983 ATATATATAT
Statistics
Matches: 65, Mismatches: 7, Indels: 11
0.78 0.08 0.13
Matches are distributed among these distances:
41 1 0.02
42 7 0.11
43 16 0.25
44 24 0.37
45 9 0.14
46 8 0.12
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (42 bp):
ATATTATATATTTTTTATACTATTATATATATTTCTAATATT
Found at i:84329216 original size:31 final size:32
Alignment explanation
Indices: 84329163--84329226 Score: 94
Period size: 31 Copynumber: 2.0 Consensus size: 32
84329153 CCATCTTATG
* *
84329163 TATATATTTTTAAATACTATATTGTATATATA
1 TATATATTCTTAAATACCATATTGTATATATA
*
84329195 TATATATTCTT-AATACCATATTGTGTATATA
1 TATATATTCTTAAATACCATATTGTATATATA
84329226 T
1 T
84329227 CATTATTACA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 19 0.66
32 10 0.34
ACGTcount: A:0.38, C:0.06, G:0.05, T:0.52
Consensus pattern (32 bp):
TATATATTCTTAAATACCATATTGTATATATA
Found at i:84336995 original size:19 final size:19
Alignment explanation
Indices: 84336971--84337019 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
84336961 TTTGGTACAA
84336971 GGACTAAATTGTAAAAATT
1 GGACTAAATTGTAAAAATT
84336990 GGACTAAATTGTAAAAATT
1 GGACTAAATTGTAAAAATT
*
84337009 GAACTAAATTG
1 GGACTAAATTG
84337020 AATAAACTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.47, C:0.06, G:0.16, T:0.31
Consensus pattern (19 bp):
GGACTAAATTGTAAAAATT
Found at i:84344272 original size:18 final size:18
Alignment explanation
Indices: 84344246--84344281 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
84344236 GAATATAATT
* *
84344246 AAAATATATTATTTTAAA
1 AAAAAATATTAATTTAAA
84344264 AAAAAATATTAATTTAAA
1 AAAAAATATTAATTTAAA
84344282 TATTATAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
AAAAAATATTAATTTAAA
Found at i:84344309 original size:22 final size:23
Alignment explanation
Indices: 84344283--84344325 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
84344273 TAATTTAAAT
84344283 ATTATAATTAAAAT-TTTTTATA
1 ATTATAATTAAAATATTTTTATA
*
84344305 ATTATAATTAAAGTATTTTTA
1 ATTATAATTAAAATATTTTTA
84344326 ATATATTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (23 bp):
ATTATAATTAAAATATTTTTATA
Found at i:84345345 original size:2 final size:2
Alignment explanation
Indices: 84345338--84345375 Score: 51
Period size: 2 Copynumber: 19.0 Consensus size: 2
84345328 CTCATACTTT
*
84345338 TA TA TA TA GTA TA TA TA AA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
84345376 GATTAGAGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
1 1 0.03
2 29 0.91
3 2 0.06
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:84348699 original size:29 final size:28
Alignment explanation
Indices: 84348667--84348729 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 28
84348657 TAAAAATTCA
84348667 AAAAATAATTAAAACTATTTTTAGAAAT-T
1 AAAAATAATTAAAACTA-TTTTA-AAATAT
** *
84348696 AAAAATCGTTAAAATTATTTTAAAATAT
1 AAAAATAATTAAAACTATTTTAAAATAT
84348724 AAAAAT
1 AAAAAT
84348730 TATGAAGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
27 4 0.13
28 12 0.40
29 14 0.47
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (28 bp):
AAAAATAATTAAAACTATTTTAAAATAT
Found at i:84348717 original size:28 final size:29
Alignment explanation
Indices: 84348675--84348729 Score: 78
Period size: 28 Copynumber: 1.9 Consensus size: 29
84348665 CAAAAAATAA
84348675 TTAAAACTATTTTTAGAAAT-TAAAAATCG
1 TTAAAACTATTTTTA-AAATATAAAAATCG
*
84348704 TTAAAATTA-TTTTAAAATATAAAAAT
1 TTAAAACTATTTTTAAAATATAAAAAT
84348730 TATGAAGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 4 0.17
28 12 0.50
29 8 0.33
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.40
Consensus pattern (29 bp):
TTAAAACTATTTTTAAAATATAAAAATCG
Found at i:84353284 original size:23 final size:23
Alignment explanation
Indices: 84353258--84353303 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
84353248 TTAAATTTCA
84353258 AATTATTTAGTGATAATATTTAG
1 AATTATTTAGTGATAATATTTAG
* * *
84353281 AATTATTTTGTGCTCATATTTAG
1 AATTATTTAGTGATAATATTTAG
84353304 GAAAAATCTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.33, C:0.04, G:0.13, T:0.50
Consensus pattern (23 bp):
AATTATTTAGTGATAATATTTAG
Found at i:84354646 original size:21 final size:21
Alignment explanation
Indices: 84354622--84354661 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
84354612 TTTTTTTTAT
84354622 CATTTTAATAATTTTTTAAAA
1 CATTTTAATAATTTTTTAAAA
* *
84354643 CATTTTTATAGTTTTTTAA
1 CATTTTAATAATTTTTTAA
84354662 TATAAACCCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (21 bp):
CATTTTAATAATTTTTTAAAA
Found at i:84361170 original size:11 final size:11
Alignment explanation
Indices: 84361154--84361178 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
84361144 GGAAGGATGA
84361154 ATAATATATAT
1 ATAATATATAT
84361165 ATAATATATAT
1 ATAATATATAT
84361176 ATA
1 ATA
84361179 TAAAGAGAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
ATAATATATAT
Found at i:84361175 original size:13 final size:13
Alignment explanation
Indices: 84361157--84361181 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
84361147 AGGATGAATA
84361157 ATATATATATAAT
1 ATATATATATAAT
84361170 ATATATATATAA
1 ATATATATATAA
84361182 AGAGAGAGAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATATATATATAAT
Done.