Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 345 of 433
Found at i:108414008 original size:15 final size:16
Alignment explanation
Indices: 108413988--108414017 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
108413978 CTGTAAAGAT
108413988 TATACATTC-CATATA
1 TATACATTCTCATATA
108414003 TATACATTCTCATAT
1 TATACATTCTCATAT
108414018 CTCGTACTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.37, C:0.20, G:0.00, T:0.43
Consensus pattern (16 bp):
TATACATTCTCATATA
Found at i:108414182 original size:42 final size:43
Alignment explanation
Indices: 108414074--108414186 Score: 131
Period size: 42 Copynumber: 2.7 Consensus size: 43
108414064 ATGGAGTACA
* * * *
108414074 ATGCCGACGTCCCAGACTTGGTCTTACATGTAATTCAGTATCG
1 ATGCCGATGTCCCAGACATGGTCTTACATGAAAATCAGTATCG
** * *
108414117 ATGCCTCTGTCCCTGACAGGGTCTTACAT-AAAATCAG-ATACG
1 ATGCCGATGTCCCAGACATGGTCTTACATGAAAATCAGTAT-CG
108414159 ATGCCGATGTCCCAGACATGGTCTTACA
1 ATGCCGATGTCCCAGACATGGTCTTACA
108414187 CATAAATCTC
Statistics
Matches: 57, Mismatches: 12, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
41 2 0.04
42 32 0.56
43 23 0.40
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (43 bp):
ATGCCGATGTCCCAGACATGGTCTTACATGAAAATCAGTATCG
Found at i:108414214 original size:44 final size:43
Alignment explanation
Indices: 108414082--108414231 Score: 128
Period size: 44 Copynumber: 3.5 Consensus size: 43
108414072 CAATGCCGAC
* ** * *
108414082 GTCCCAGACTTGGTCTTACATGT-AATTCAGTATCGATGCCTCT
1 GTCCCAGACATGGTCTTACACATAAATTCA-AATCGATGCCTGT
* * * *
108414125 GTCCCTGACAGGGTCTT--ACATAAAATCAGATACGATGCC-GAT
1 GTCCCAGACATGGTCTTACACATAAATTCAAAT-CGATGCCTG-T
*
108414167 GTCCCAGACATGGTCTTACACATAAATCTCAAATCGAGGCCTGT
1 GTCCCAGACATGGTCTTACACATAAAT-TCAAATCGATGCCTGT
* *
108414211 GTCCTAGACACGGTCTTACAC
1 GTCCCAGACATGGTCTTACAC
108414232 GATATCTCCG
Statistics
Matches: 85, Mismatches: 15, Indels: 13
0.75 0.13 0.12
Matches are distributed among these distances:
41 4 0.05
42 28 0.33
43 14 0.16
44 33 0.39
45 6 0.07
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACACATAAATTCAAATCGATGCCTGT
Found at i:108416752 original size:43 final size:42
Alignment explanation
Indices: 108416640--108416752 Score: 104
Period size: 42 Copynumber: 2.7 Consensus size: 42
108416630 GATATTTATG
* ***
108416640 TGTAAGACCATGTCTGGGACATCGGCATCGTATCTGATTTTG
1 TGTAAAACCATGTCTGGGACATCGGCATCGTATCTGATTACA
* **
108416682 TGTAAGAACC-TGTCAGGGACAGAGGCATCG-ATACTGAATTACA
1 TGTAA-AACCATGTCTGGGACATCGGCATCGTAT-CTG-ATTACA
* *
108416725 TGTAATACCACGTCTGGGACATCGGCAT
1 TGTAAAACCATGTCTGGGACATCGGCAT
108416753 TGTACTCCAT
Statistics
Matches: 55, Mismatches: 12, Indels: 7
0.74 0.16 0.09
Matches are distributed among these distances:
41 2 0.04
42 28 0.51
43 25 0.45
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (42 bp):
TGTAAAACCATGTCTGGGACATCGGCATCGTATCTGATTACA
Found at i:108417909 original size:16 final size:16
Alignment explanation
Indices: 108417888--108417918 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
108417878 ATAAATTTGA
108417888 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
108417904 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
108417919 AGTGTAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:108425346 original size:53 final size:54
Alignment explanation
Indices: 108425163--108425378 Score: 267
Period size: 55 Copynumber: 4.0 Consensus size: 54
108425153 ATTAGGGTTT
*
108425163 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-GTTTCATAAGGC
* * *
108425218 AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTC-ATAAGGC
* * *
108425273 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCATAAGGC
* * * * *
108425326 AAGGATACCATGTAAGACCATGTCGAGACATGGCAATGGTATGTTTCAAAAGG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCATAAGG
108425379 ATACCACGTA
Statistics
Matches: 138, Mismatches: 18, Indels: 11
0.83 0.11 0.07
Matches are distributed among these distances:
52 4 0.03
53 43 0.31
54 18 0.13
55 69 0.50
56 4 0.03
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCATAAGGC
Found at i:108425372 original size:108 final size:110
Alignment explanation
Indices: 108425170--108425372 Score: 322
Period size: 108 Copynumber: 1.9 Consensus size: 110
108425160 TTTAAGGATA
*
108425170 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGATATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
*
108425235 CCATGTCAAGACATGGCATTGATAAGTTTCTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTTCTATAAGGCAAAGGTC
*
108425280 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGATACCATGTAAG
* * *
108425342 ACCATGTCGAGACATGGCAATGGTATGTTTC
65 ACCATGTCAAGACATGGCAATGATAAGTTTC
108425373 AAAAGGATAC
Statistics
Matches: 86, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
107 3 0.03
108 49 0.57
109 7 0.08
110 27 0.31
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTTCTATAAGGCAAAGGTC
Found at i:108427062 original size:43 final size:43
Alignment explanation
Indices: 108426985--108427382 Score: 345
Period size: 43 Copynumber: 9.3 Consensus size: 43
108426975 CATAGGATTT
* *
108426985 TCGATATGTG-TTCTCGTGTAAGACCAC-GTTTGGGACGTTGGCA
1 TCGATATGTGATT-ACGTGTAAGACC-CTGTCTGGGACGTTGGCA
* * *
108427028 TCAATAT-TAGATTACATGTAAGACCCTATCTGGGACAG-TGGCA
1 TCGATATGT-GATTACGTGTAAGACCCTGTCTGGGAC-GTTGGCA
* * * * *
108427071 GT-AATATGTGATTACGTGTAAGACCATGTCTAGGACATCGGCA
1 -TCGATATGTGATTACGTGTAAGACCCTGTCTGGGACGTTGGCA
* * *
108427114 TCG-TATTTGATT-TGTGTAAGACCCTGTCTAGGACAG-TGGCA
1 TCGATATGTGATTACGTGTAAGACCCTGTCTGGGAC-GTTGGCA
* * *
108427155 TCGATATGTGATTATGTCTAAGACCAC-GTCTGGGACGTTGGTA
1 TCGATATGTGATTACGTGTAAGACC-CTGTCTGGGACGTTGGCA
* * *
108427198 TCGATATGTGATTATGTGTAAGACCATGTCTGGGATGTTGGCA
1 TCGATATGTGATTACGTGTAAGACCCTGTCTGGGACGTTGGCA
*
108427241 TCGATATGTGATTACGTGTAAAACCACAT-T-TGGGACGTTGGCA
1 TCGATATGTGATTACGTGTAAGACC-C-TGTCTGGGACGTTGGCA
* * * *
108427284 TCAATATGTGATTACGTCTAAGACCAC-ATCTAGGACGTTGGCA
1 TCGATATGTGATTACGTGTAAGACC-CTGTCTGGGACGTTGGCA
* * ***
108427327 TCGATATGTGATTACGAGTAAGACCAC-GTTTAATACGTTGGCA
1 TCGATATGTGATTACGTGTAAGACC-CTGTCTGGGACGTTGGCA
108427370 TCGATATGTGATT
1 TCGATATGTGATT
108427383 CTGATATGTG
Statistics
Matches: 297, Mismatches: 40, Indels: 36
0.80 0.11 0.10
Matches are distributed among these distances:
41 27 0.09
42 21 0.07
43 241 0.81
44 7 0.02
45 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (43 bp):
TCGATATGTGATTACGTGTAAGACCCTGTCTGGGACGTTGGCA
Found at i:108427240 original size:86 final size:86
Alignment explanation
Indices: 108426985--108427382 Score: 414
Period size: 86 Copynumber: 4.7 Consensus size: 86
108426975 CATAGGATTT
* * *
108426985 TCGATATGTG-TTCTCGTGTAAGACCACGTTTGGGACGTTGGCATCAATAT-TAGATTACATGTA
1 TCGATATGTGATT-ACGTGTAAGACCACGTTTGGGACGTTGGCATCGATATGT-GATTACGTGTA
* *
108427048 AGACCCTATCTGGGACAGTGGCA
64 AGACCATATCTAGGACAGTGGCA
* * * * * * * *
108427071 GT-AATATGTGATTACGTGTAAGACCATGTCTAGGACATCGGCATCG-TATTTGATT-TGTGTAA
1 -TCGATATGTGATTACGTGTAAGACCACGTTTGGGACGTTGGCATCGATATGTGATTACGTGTAA
* *
108427133 GACCCTGTCTAGGACAGTGGCA
65 GACCATATCTAGGACAGTGGCA
* * * * *
108427155 TCGATATGTGATTATGTCTAAGACCACGTCTGGGACGTTGGTATCGATATGTGATTATGTGTAAG
1 TCGATATGTGATTACGTGTAAGACCACGTTTGGGACGTTGGCATCGATATGTGATTACGTGTAAG
* * *
108427220 ACCATGTCTGGGA-TGTTGGCA
66 ACCATATCTAGGACAG-TGGCA
* * * *
108427241 TCGATATGTGATTACGTGTAAAACCACATTTGGGACGTTGGCATCAATATGTGATTACGTCTAAG
1 TCGATATGTGATTACGTGTAAGACCACGTTTGGGACGTTGGCATCGATATGTGATTACGTGTAAG
*
108427306 ACCACATCTAGGAC-GTTGGCA
66 ACCATATCTAGGACAG-TGGCA
* ***
108427327 TCGATATGTGATTACGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATT
1 TCGATATGTGATTACGTGTAAGACCACGTTTGGGACGTTGGCATCGATATGTGATT
108427383 CTGATATGTG
Statistics
Matches: 261, Mismatches: 43, Indels: 15
0.82 0.13 0.05
Matches are distributed among these distances:
83 1 0.00
84 61 0.23
85 16 0.06
86 180 0.69
87 3 0.01
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (86 bp):
TCGATATGTGATTACGTGTAAGACCACGTTTGGGACGTTGGCATCGATATGTGATTACGTGTAAG
ACCATATCTAGGACAGTGGCA
Found at i:108427415 original size:56 final size:56
Alignment explanation
Indices: 108427328--108427516 Score: 263
Period size: 56 Copynumber: 3.4 Consensus size: 56
108427318 ACGTTGGCAT
*
108427328 CGATATGTGAT-TACGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTC
1 CGATATGTG-TGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTC
* * *
108427384 TGATATGTGTGTGCGAGTAAGACCACGTTTAATATGTTGGCATTGATATGTGATTC
1 CGATATGTGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTC
* * * * *
108427440 CAATTTGTGTGTGCGAGTAAGACCATGTTTAATACGTTGGAATCGATAGGTGATTC
1 CGATATGTGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTC
* *
108427496 CGATATGTGTTTACGAGTAAG
1 CGATATGTGTGTGCGAGTAAG
108427517 TCCCTATCTG
Statistics
Matches: 116, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
55 1 0.01
56 115 0.99
ACGTcount: A:0.27, C:0.13, G:0.26, T:0.34
Consensus pattern (56 bp):
CGATATGTGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTC
Found at i:108427538 original size:112 final size:112
Alignment explanation
Indices: 108427341--108427546 Score: 254
Period size: 112 Copynumber: 1.8 Consensus size: 112
108427331 TATGTGATTA
* * * *
108427341 CGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCTGATATGTGTGTGCGAGTAAGA
1 CGAGTAAGACCACGTTTAATACGTTGGAATCGATAGGTGATTCCGATATGTGTGTACGAGTAAGA
* *** *
108427406 CCACGTTTAATATGTTGGCATTGATATGTGATTCCAATTTGTGTGTG
66 CCACGTTTAAGACAATGGCATCGATATGTGATTCCAATTTGTGTGTG
* * *
108427453 CGAGTAAGACCATGTTTAATACGTTGGAATCGATAGGTGATTCCGATATGTGTTTACGAGTAAGT
1 CGAGTAAGACCACGTTTAATACGTTGGAATCGATAGGTGATTCCGATATGTGTGTACGAGTAAGA
**
108427518 CC-C-TATCTGGGACAATGGCATCGATATGT
66 CCACGT-T-TAAGACAATGGCATCGATATGT
108427547 AATTATATGT
Statistics
Matches: 78, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
110 1 0.01
111 2 0.03
112 75 0.96
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (112 bp):
CGAGTAAGACCACGTTTAATACGTTGGAATCGATAGGTGATTCCGATATGTGTGTACGAGTAAGA
CCACGTTTAAGACAATGGCATCGATATGTGATTCCAATTTGTGTGTG
Found at i:108427889 original size:2 final size:2
Alignment explanation
Indices: 108427836--108427873 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
108427826 GAAACATGTG
108427836 TA TA TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
108427874 GAATGTGTAC
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:108430407 original size:18 final size:18
Alignment explanation
Indices: 108430371--108430408 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
108430361 TAGTGTCTTT
108430371 TGGAACTCAAATCCTACCA
1 TGGAACTCAAA-CCTACCA
108430390 TGGAATCTCAAA-CTACCA
1 TGGAA-CTCAAACCTACCA
108430408 T
1 T
108430409 TGGAGTCACT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.39
19 5 0.28
20 6 0.33
ACGTcount: A:0.37, C:0.29, G:0.11, T:0.24
Consensus pattern (18 bp):
TGGAACTCAAACCTACCA
Found at i:108430412 original size:19 final size:19
Alignment explanation
Indices: 108430370--108430412 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
108430360 TTAGTGTCTT
108430370 TTGGAACTCAAATCCTACCA
1 TTGGAACTCAAA-CCTACCA
108430390 -TGGAATCTCAAA-CTACCA
1 TTGGAA-CTCAAACCTACCA
108430408 TTGGA
1 TTGGA
108430413 GTCACTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
18 6 0.29
19 9 0.43
20 6 0.29
ACGTcount: A:0.35, C:0.26, G:0.14, T:0.26
Consensus pattern (19 bp):
TTGGAACTCAAACCTACCA
Found at i:108436549 original size:41 final size:41
Alignment explanation
Indices: 108436492--108436670 Score: 227
Period size: 41 Copynumber: 4.3 Consensus size: 41
108436482 ACATAAAATT
*
108436492 TGCTAGGC-ATAAAGCCT-AGTATAATACACCGGCACAGAGCC
1 TGCTAGGCAAT-AAGCCTGA-TATAATACACCGGCACAAAGCC
*
108436533 TGCTAGGCAATAAGCCTGATATAATACACCGGCATATAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACCGGC--ACAAAGCC
* *
108436576 TGCTAGGCAATAAACCTGATTTAATACACCGGCACAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
* * * *
108436617 TGCTAGGAAATAAGCCTGATTTAATATACTGGCACAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
*
108436658 TGCTAGACAATAA
1 TGCTAGGCAATAA
108436671 AGCCCGAATA
Statistics
Matches: 123, Mismatches: 11, Indels: 8
0.87 0.08 0.06
Matches are distributed among these distances:
41 83 0.67
42 3 0.02
43 37 0.30
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.21
Consensus pattern (41 bp):
TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
Found at i:108436629 original size:84 final size:83
Alignment explanation
Indices: 108436492--108436674 Score: 246
Period size: 84 Copynumber: 2.2 Consensus size: 83
108436482 ACATAAAATT
* *
108436492 TGCTAGGC-ATAAAGCCTAGTATAATACACCGGCACAGAGCCTGCTAGGCAATAAGCCTGATATA
1 TGCTAGGCAATAAAGCCTAGTATAATACACCGGCACAAAGCCTGCTAGGAAATAAGCCTGATATA
*
108436556 ATACACCGGCATATAAAGCC
66 ATACACCGGC--ACAAAGCC
* *
108436576 TGCTAGGCAATAAA-CCT-GATTTAATACACCGGCACAAAGCCTGCTAGGAAATAAGCCTGATTT
1 TGCTAGGCAATAAAGCCTAG-TATAATACACCGGCACAAAGCCTGCTAGGAAATAAGCCTGATAT
* *
108436639 AATATACTGGCACAAAGCC
65 AATACACCGGCACAAAGCC
*
108436658 TGCTAGACAATAAAGCC
1 TGCTAGGCAATAAAGCC
108436675 CGAATATCAC
Statistics
Matches: 88, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
82 20 0.23
83 3 0.03
84 60 0.68
85 5 0.06
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.20
Consensus pattern (83 bp):
TGCTAGGCAATAAAGCCTAGTATAATACACCGGCACAAAGCCTGCTAGGAAATAAGCCTGATATA
ATACACCGGCACAAAGCC
Found at i:108454919 original size:46 final size:46
Alignment explanation
Indices: 108454864--108454992 Score: 149
Period size: 47 Copynumber: 2.8 Consensus size: 46
108454854 ATGGTTGAGC
*
108454864 ATCCCAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T-G
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA--GATG-GAACTAG
* * *
108454911 -TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAGATGTAACTAGG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGATGGAACTA-G
108454956 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAG
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAG
108454993 GGGCGGGTTA
Statistics
Matches: 70, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.03
43 5 0.07
45 3 0.04
46 28 0.40
47 29 0.41
48 3 0.04
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGATGGAACTAG
Found at i:108457087 original size:21 final size:21
Alignment explanation
Indices: 108457062--108457108 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
108457052 CAAATTCTTT
108457062 CAGCTCAAGTATCCCGACTAA
1 CAGCTCAAGTATCCCGACTAA
* **
108457083 TAGCTTTAGTATCCCGACTAA
1 CAGCTCAAGTATCCCGACTAA
108457104 CAGCT
1 CAGCT
108457109 TTATATCTTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.26
Consensus pattern (21 bp):
CAGCTCAAGTATCCCGACTAA
Found at i:108457109 original size:21 final size:21
Alignment explanation
Indices: 108457069--108457115 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
108457059 TTTCAGCTCA
*
108457069 AGTATCCCGACTAATAGCTTT
1 AGTATCCCGACTAACAGCTTT
108457090 AGTATCCCGACTAACAGCTTT
1 AGTATCCCGACTAACAGCTTT
108457111 A-TATC
1 AGTATC
108457116 TTCATTTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 4 0.16
21 21 0.84
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.32
Consensus pattern (21 bp):
AGTATCCCGACTAACAGCTTT
Found at i:108462529 original size:12 final size:12
Alignment explanation
Indices: 108462512--108462536 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
108462502 AAACAATATC
108462512 ATAATAATCCTA
1 ATAATAATCCTA
108462524 ATAATAATCCTA
1 ATAATAATCCTA
108462536 A
1 A
108462537 AACTAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (12 bp):
ATAATAATCCTA
Found at i:108465525 original size:38 final size:38
Alignment explanation
Indices: 108465483--108465561 Score: 140
Period size: 38 Copynumber: 2.1 Consensus size: 38
108465473 GGTAACTTTC
*
108465483 CTTGTGAGTTATTTTTCTCAATTGATATGGTTAACTCT
1 CTTGTGAGTTATTTTTCTCAATTGATATAGTTAACTCT
*
108465521 CTTGTGAGTTCTTTTTCTCAATTGATATAGTTAACTCT
1 CTTGTGAGTTATTTTTCTCAATTGATATAGTTAACTCT
108465559 CTT
1 CTT
108465562 ATAGACACCT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.20, C:0.15, G:0.14, T:0.51
Consensus pattern (38 bp):
CTTGTGAGTTATTTTTCTCAATTGATATAGTTAACTCT
Found at i:108468106 original size:27 final size:26
Alignment explanation
Indices: 108468071--108468143 Score: 78
Period size: 27 Copynumber: 2.8 Consensus size: 26
108468061 AGCGAGCATT
*
108468071 ATCGAGAAGCTCATAAAGAGCCAATTTA
1 ATCGGGAAGCTCATAAAGAGCC--TTTA
* *
108468099 AT-GGGAAGTTCATAAAGAACCTTTA
1 ATCGGGAAGCTCATAAAGAGCCTTTA
*
108468124 ATCGGGATGCTCAT-AAGAGC
1 ATCGGGAAGCTCATAAAGAGC
108468144 TAAGGTGTGT
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
25 11 0.29
26 9 0.24
27 16 0.42
28 2 0.05
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.23
Consensus pattern (26 bp):
ATCGGGAAGCTCATAAAGAGCCTTTA
Found at i:108471059 original size:12 final size:12
Alignment explanation
Indices: 108471042--108471066 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
108471032 AAACAATATC
108471042 ATAATAATCCTA
1 ATAATAATCCTA
108471054 ATAATAATCCTA
1 ATAATAATCCTA
108471066 A
1 A
108471067 AACTAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (12 bp):
ATAATAATCCTA
Found at i:108478549 original size:20 final size:20
Alignment explanation
Indices: 108478526--108478570 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
108478516 TTCCACATCA
*
108478526 ATTTAATATTAAAGAATAAT
1 ATTTAATATCAAAGAATAAT
** *
108478546 ATTTTCTATCAAGGAATAAT
1 ATTTAATATCAAAGAATAAT
108478566 ATTTA
1 ATTTA
108478571 CGTATTTATT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.42
Consensus pattern (20 bp):
ATTTAATATCAAAGAATAAT
Found at i:108479355 original size:35 final size:34
Alignment explanation
Indices: 108479316--108479411 Score: 111
Period size: 35 Copynumber: 2.7 Consensus size: 34
108479306 ACCAATTCCG
* *
108479316 GCCTAAGCCCATCATAGATACAGATGCATATTCGA
1 GCCTAAGCCCATC-CAGATACAGATACATATTCGA
* * *
108479351 GCCTAAGCCCATTCCAGATATAGATACATATTTGG
1 GCCTAAGCCCA-TCCAGATACAGATACATATTCGA
*
108479386 GCCTAAGCCCATCTCAAATACAGATA
1 GCCTAAGCCCATC-CAGATACAGATA
108479412 TAGATATACA
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
34 2 0.04
35 48 0.92
36 2 0.04
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (34 bp):
GCCTAAGCCCATCCAGATACAGATACATATTCGA
Found at i:108486522 original size:35 final size:35
Alignment explanation
Indices: 108486443--108486552 Score: 125
Period size: 35 Copynumber: 3.1 Consensus size: 35
108486433 AGAGTCAATC
* * * * *
108486443 AGATACCA-ATTCGGGCCTGAGCCCATCACAGAGAC
1 AGATA-CATATTCGGGCCTAAGCCCATCTCAAATAT
*
108486478 AGATGCATATTCGGGCCTAAGCCCAT-TCTAAATAT
1 AGATACATATTCGGGCCTAAGCCCATCTC-AAATAT
*
108486513 AGATACATATTTGGGCCTAAGCCCATCTCAAATAT
1 AGATACATATTCGGGCCTAAGCCCATCTCAAATAT
108486548 AGATA
1 AGATA
108486553 TAGATATACA
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
34 3 0.05
35 59 0.92
36 2 0.03
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.24
Consensus pattern (35 bp):
AGATACATATTCGGGCCTAAGCCCATCTCAAATAT
Found at i:108495437 original size:40 final size:40
Alignment explanation
Indices: 108495376--108495557 Score: 287
Period size: 40 Copynumber: 4.6 Consensus size: 40
108495366 AACCCAAGTA
* * *
108495376 CCTTCGGGAATTA-TCCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
108495415 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
108495455 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
108495495 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAGG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
108495535 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
108495558 CATCCGAATA
Statistics
Matches: 133, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 11 0.08
40 121 0.91
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:108500020 original size:13 final size:13
Alignment explanation
Indices: 108500002--108500036 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
108499992 TTACGAAGGG
108500002 CACATGAGCTAGT
1 CACATGAGCTAGT
108500015 CACATGAGCTAGT
1 CACATGAGCTAGT
*
108500028 CACACGAGC
1 CACATGAGC
108500037 GTGTGTGTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.23, T:0.17
Consensus pattern (13 bp):
CACATGAGCTAGT
Found at i:108513364 original size:22 final size:22
Alignment explanation
Indices: 108513339--108513382 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
108513329 ACAACAACAA
*
108513339 GGTGAGCGTTTCATTTGTCAAT
1 GGTGAGCATTTCATTTGTCAAT
108513361 GGTGAGCATTTCATTTGTCAAT
1 GGTGAGCATTTCATTTGTCAAT
108513383 TCTATAATCT
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:0.20, C:0.14, G:0.25, T:0.41
Consensus pattern (22 bp):
GGTGAGCATTTCATTTGTCAAT
Found at i:108515741 original size:47 final size:47
Alignment explanation
Indices: 108515687--108515821 Score: 243
Period size: 47 Copynumber: 2.9 Consensus size: 47
108515677 ACAATCGATA
* *
108515687 AGTACCTATACCATGGCTCGTAGCCAAATCAAGGTAACTTATCCTGG
1 AGTACCTATACCATGGCCCCTAGCCAAATCAAGGTAACTTATCCTGG
108515734 AGTACCTATACCATGGCCCCTAGCCAAATCAAGGTAACTTATCCTGG
1 AGTACCTATACCATGGCCCCTAGCCAAATCAAGGTAACTTATCCTGG
*
108515781 AGTACCTATACCATGGCCCTTAGCCAAATCAAGGTAACTTA
1 AGTACCTATACCATGGCCCCTAGCCAAATCAAGGTAACTTA
108515822 CCTCGGTTGT
Statistics
Matches: 85, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 85 1.00
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.24
Consensus pattern (47 bp):
AGTACCTATACCATGGCCCCTAGCCAAATCAAGGTAACTTATCCTGG
Found at i:108518521 original size:46 final size:46
Alignment explanation
Indices: 108518465--108518633 Score: 191
Period size: 46 Copynumber: 3.7 Consensus size: 46
108518455 TGGTTGAGCA
* *
108518465 TCCGAACTCGTTGAGTTGAGTCCGAGTTCAATTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCAATTATGGATGTAAACG
* * * *
108518511 TCCGAACTCGTTGAGTTGAGTCGGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCAATTATGGATGTAA--A--CG
* *
108518558 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGTGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCAATTATGGATGTAAACG
* *
108518604 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA
108518634 CTTAGGGGCG
Statistics
Matches: 103, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 57 0.55
47 28 0.27
48 3 0.03
50 6 0.06
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCAATTATGGATGTAAACG
Found at i:108518621 original size:93 final size:93
Alignment explanation
Indices: 108518462--108518632 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
108518452 GGATGGTTGA
* *
108518462 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAATTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAATTATGGATGCAAACGCCCGAACTCGTTGAGT
*
108518527 TGAGTCGGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* ** *
108518555 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGTGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAATTATGGATGCAAACGCCCGAACTCGTTGAGT
108518620 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
108518633 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAATTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:108518899 original size:19 final size:20
Alignment explanation
Indices: 108518862--108518899 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
108518852 ATAAGGTGGT
108518862 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
108518882 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
108518900 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:108527213 original size:13 final size:13
Alignment explanation
Indices: 108527191--108527223 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
108527181 AAGGATTTGT
108527191 TTAT-TAAACTAA
1 TTATCTAAACTAA
108527203 TTATCTAAACTAA
1 TTATCTAAACTAA
*
108527216 TTAACTAA
1 TTATCTAA
108527224 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:108530091 original size:6 final size:6
Alignment explanation
Indices: 108530051--108530136 Score: 75
Period size: 6 Copynumber: 13.7 Consensus size: 6
108530041 ATAGTGGAAT
* * * * *
108530051 AAAATA ATAAATT GAAATG AAAATA AAAATC AAAAGA AAAATA AAAATAA
1 AAAATA A-AAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAAT-A
108530101 AAAATAA AAAATA AAAAT- AAAATA AGGAAATA AAAA
1 AAAAT-A AAAATA AAAATA AAAATA A--AAATA AAAA
108530137 ATAGGAGGAT
Statistics
Matches: 66, Mismatches: 9, Indels: 10
0.78 0.11 0.12
Matches are distributed among these distances:
5 5 0.08
6 38 0.58
7 17 0.26
8 6 0.09
ACGTcount: A:0.77, C:0.01, G:0.06, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:108530111 original size:26 final size:24
Alignment explanation
Indices: 108530070--108530139 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 24
108530060 AATTGAAATG
* *
108530070 AAAATAAAAATCAAAAGA-AAAATA
1 AAAATAAAAAT-AAAAAATAAAAAA
*
108530094 AAAATAAAAAATAAAAAATAAAAAT
1 AAAAT-AAAAATAAAAAATAAAAAA
108530119 AAAATAAGGAAATAAAAAATA
1 AAAATAA--AAATAAAAAATA
108530140 GGAGGATTCA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
24 12 0.31
25 15 0.38
26 12 0.31
ACGTcount: A:0.80, C:0.01, G:0.04, T:0.14
Consensus pattern (24 bp):
AAAATAAAAATAAAAAATAAAAAA
Found at i:108530136 original size:20 final size:19
Alignment explanation
Indices: 108530070--108530139 Score: 65
Period size: 19 Copynumber: 3.7 Consensus size: 19
108530060 AATTGAAATG
*
108530070 AAAAT-AAAAATCAAAA-GA
1 AAAATAAAAAAT-AAAATAA
*
108530088 AAAATAAAAATAAAAAATAA
1 AAAATAAAAA-ATAAAATAA
108530108 AAAAT-AAAAATAAAATAA
1 AAAATAAAAAATAAAATAA
*
108530126 GGAAATAAAAAATA
1 -AAAATAAAAAATA
108530140 GGAGGATTCA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
18 13 0.30
19 16 0.37
20 14 0.33
ACGTcount: A:0.80, C:0.01, G:0.04, T:0.14
Consensus pattern (19 bp):
AAAATAAAAAATAAAATAA
Found at i:108535478 original size:13 final size:13
Alignment explanation
Indices: 108535456--108535488 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
108535446 AAGGACTTAT
108535456 TTAT-TAAACTAA
1 TTATCTAAACTAA
108535468 TTATCTAAACTAA
1 TTATCTAAACTAA
*
108535481 TTAACTAA
1 TTATCTAA
108535489 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:108547748 original size:39 final size:37
Alignment explanation
Indices: 108547668--108547980 Score: 311
Period size: 39 Copynumber: 8.0 Consensus size: 37
108547658 AAATCCAATC
* *
108547668 ACCACCACAAAGCATGCGGGACTTTAAGCCCGGATATAAT
1 ACCAGCACAAAGC-TTCGGGAC-TT-AGCCCGGATATAAT
108547708 ACCAGCACAAAGCTTGCGGGACTTTAGCCCGGATATAAT
1 ACCAGCACAAAGCTT-CGGGAC-TTAGCCCGGATATAAT
*
108547747 ACCAGCACAAATGCCTTCGGGACTTAGCCCGGATATAAC
1 ACCAGCACAAA-G-CTTCGGGACTTAGCCCGGATATAAT
108547786 ACCAGCACAAATGCCTTCGGGACTTAGCCCGGATATAAT
1 ACCAGCACAAA-G-CTTCGGGACTTAGCCCGGATATAAT
** ** *
108547825 ACCAGCACGAATTCCTTTAGGACTTAGCTCGGATATAAT
1 ACCAGCAC-AA-AGCTTCGGGACTTAGCCCGGATATAAT
** * *
108547864 ACCAGCACGAATTCCTTCGAGACTTAGCCCTGATATAAT
1 ACCAGCAC-AA-AGCTTCGGGACTTAGCCCGGATATAAT
* ** *
108547903 ACCAGCATGAATTCTTTCGGGACTTAGCCCGGATATAAC
1 ACCAGCA-CAAAGC-TTCGGGACTTAGCCCGGATATAAT
* *
108547942 ACCAGCACAAATGCCTTCGAGACTTAACCCGGATATAAT
1 ACCAGCACAAA-G-CTTCGGGACTTAGCCCGGATATAAT
108547981 TCTCCACTAT
Statistics
Matches: 239, Mismatches: 25, Indels: 19
0.84 0.09 0.07
Matches are distributed among these distances:
38 4 0.02
39 201 0.84
40 31 0.13
41 3 0.01
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (37 bp):
ACCAGCACAAAGCTTCGGGACTTAGCCCGGATATAAT
Found at i:108547813 original size:78 final size:78
Alignment explanation
Indices: 108547684--108547980 Score: 409
Period size: 78 Copynumber: 3.8 Consensus size: 78
108547674 ACAAAGCATG
* *
108547684 CGGGACTTTAAGCCCGGATATAATACCAGCACAAA-G-CTTGCGGGACTTTAGCCCGGATATAAT
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACAAATGCCTT-CGAGAC-TTAGCCCGGATATAAT
* *
108547747 ACCAGCACAAATGCCTT
62 ACCAGCACGAATTCCTT
*
108547764 CGGGACTTAGCCCGGATATAACACCAGCACAAATGCCTTCGGGACTTAGCCCGGATATAATACCA
1 CGGGACTTAGCCCGGATATAACACCAGCACAAATGCCTTCGAGACTTAGCCCGGATATAATACCA
108547829 GCACGAATTCCTT
66 GCACGAATTCCTT
** * * * * *
108547842 TAGGACTTAGCTCGGATATAATACCAGCACGAATTCCTTCGAGACTTAGCCCTGATATAATACCA
1 CGGGACTTAGCCCGGATATAACACCAGCACAAATGCCTTCGAGACTTAGCCCGGATATAATACCA
* *
108547907 GCATGAATTCTTT
66 GCACGAATTCCTT
*
108547920 CGGGACTTAGCCCGGATATAACACCAGCACAAATGCCTTCGAGACTTAACCCGGATATAAT
1 CGGGACTTAGCCCGGATATAACACCAGCACAAATGCCTTCGAGACTTAGCCCGGATATAAT
108547981 TCTCCACTAT
Statistics
Matches: 194, Mismatches: 21, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
78 176 0.91
79 9 0.05
80 9 0.05
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.23
Consensus pattern (78 bp):
CGGGACTTAGCCCGGATATAACACCAGCACAAATGCCTTCGAGACTTAGCCCGGATATAATACCA
GCACGAATTCCTT
Found at i:108547881 original size:117 final size:116
Alignment explanation
Indices: 108547667--108547980 Score: 355
Period size: 117 Copynumber: 2.7 Consensus size: 116
108547657 CAAATCCAAT
* * * **
108547667 CACCACCACAAA-GCATGCGGGACTTTAAGCCCGGATATAATACCAGCACAA-AGCTTGCGGGAC
1 CACCAGCACAAATGCATTCGGGAC-TT-AGCCCGGATATAATACCAGCACAATACCTT-TAGGAC
*
108547730 TTTAGCCCGGATATAATACCAGCACAAATGCCTTCGGGACTTAGCCCGGATATAA
63 -TTAGCCCGGATATAATACCAGCACAAATGCCTTCGAGACTTAGCCCGGATATAA
* *
108547785 CACCAGCACAAATGCCTTCGGGACTTAGCCCGGATATAATACCAGCACGAATTCCTTTAGGACTT
1 CACCAGCACAAATGCATTCGGGACTTAGCCCGGATATAATACCAGCAC-AATACCTTTAGGACTT
* * * *
108547850 AGCTCGGATATAATACCAGCACGAATTCCTTCGAGACTTAGCCCTGATATAA
65 AGCCCGGATATAATACCAGCACAAATGCCTTCGAGACTTAGCCCGGATATAA
* ** * * * * *
108547902 TACCAGCATGAATTCTTTCGGGACTTAGCCCGGATATAACACCAGCACAAATGCC-TTCGAGACT
1 CACCAGCACAAATGCATTCGGGACTTAGCCCGGATATAATACCAGCAC-AATACCTTTAG-GACT
*
108547966 TAACCCGGATATAAT
64 TAGCCCGGATATAAT
108547981 TCTCCACTAT
Statistics
Matches: 169, Mismatches: 23, Indels: 9
0.84 0.11 0.04
Matches are distributed among these distances:
116 3 0.02
117 135 0.80
118 19 0.11
119 12 0.07
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (116 bp):
CACCAGCACAAATGCATTCGGGACTTAGCCCGGATATAATACCAGCACAATACCTTTAGGACTTA
GCCCGGATATAATACCAGCACAAATGCCTTCGAGACTTAGCCCGGATATAA
Found at i:108549789 original size:31 final size:31
Alignment explanation
Indices: 108549751--108549814 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
108549741 CCTTTTCATA
108549751 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
108549782 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
108549813 TT
1 TT
108549815 ACTGTAAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:108550052 original size:24 final size:24
Alignment explanation
Indices: 108550006--108550124 Score: 154
Period size: 24 Copynumber: 5.0 Consensus size: 24
108549996 GCTTTATCAT
*
108550006 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
108550031 ATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGGG-CATAAGCCCTTTTA
108550055 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
**
108550078 ATAACTGGGGCATAAGCCCTTTCG
1 ATAACTGGGGCATAAGCCCTTTTA
108550102 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
108550125 TCACTTCCTC
Statistics
Matches: 85, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
23 24 0.28
24 48 0.56
25 13 0.15
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:108550085 original size:47 final size:48
Alignment explanation
Indices: 108550006--108550124 Score: 172
Period size: 47 Copynumber: 2.5 Consensus size: 48
108549996 GCTTTATCAT
*
108550006 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGG-CATAAGCCCTTTCA
*
108550055 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTCG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
108550102 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
108550125 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
46 2 0.03
47 43 0.65
48 9 0.14
49 12 0.18
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:108550200 original size:20 final size:20
Alignment explanation
Indices: 108550175--108550234 Score: 84
Period size: 20 Copynumber: 3.0 Consensus size: 20
108550165 TATGATTACC
108550175 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
** * *
108550195 TCATGTGTGTGTCATACATT
1 TCATGTGCATATCATACATA
108550215 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
108550235 CCATATTTAT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.38
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:108550309 original size:25 final size:25
Alignment explanation
Indices: 108550277--108550324 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
108550267 ATACATAAAC
* * *
108550277 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
108550302 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
108550325 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:108555840 original size:39 final size:38
Alignment explanation
Indices: 108555755--108556028 Score: 323
Period size: 39 Copynumber: 7.0 Consensus size: 38
108555745 AAATCCAATC
* * * *
108555755 ACCACCACAAAGCATGCGGGACTTTAAGCCTGGATATAAT
1 ACCAGCACAAAGCCTTCGGGAC-TT-AGCCCGGATATAAT
*
108555795 ACCAGCACAAAGCCTGCGGGACTTTAGCCCGGATATAAT
1 ACCAGCACAAAGCCTTCGGGAC-TTAGCCCGGATATAAT
* * *
108555834 ACCAGCACGAATGCCTTCGGGACTTAGCCTGGATATAAC
1 ACCAGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAAT
* *
108555873 ACCAGCACAAATGCCTTCGGGACTTAGGCTGGATATAAT
1 ACCAGCACAAA-GCCTTCGGGACTTAGCCCGGATATAAT
* **
108555912 ACCAGTACGAATTCCTTCGGGACTTAGCCCGGATATAAT
1 ACCAGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAAT
** *
108555951 ACCAGCACGAATTCCTTCGGGACTTAGCCCGGATATAAC
1 ACCAGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAAT
*
108555990 ACCAGCACAAATGCCTTCGGGACTTAACCCGGATATAAT
1 ACCAGCACAAA-GCCTTCGGGACTTAGCCCGGATATAAT
108556029 TCTCCATTAT
Statistics
Matches: 209, Mismatches: 21, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
38 4 0.02
39 168 0.80
40 37 0.18
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (38 bp):
ACCAGCACAAAGCCTTCGGGACTTAGCCCGGATATAAT
Found at i:108555910 original size:78 final size:78
Alignment explanation
Indices: 108555771--108556028 Score: 365
Period size: 78 Copynumber: 3.3 Consensus size: 78
108555761 ACAAAGCATG
* *
108555771 CGGGACTTTAAGCCTGGATATAATACCAGCACAAA-GCCTGCGGGACTTTAGCCCGGATATAATA
1 CGGGAC-TT-AGCCCGGATATAATACCAGCACAAATGCCTTCGGGAC-TTAGCCCGGATATAATA
108555835 CCAGCACGAATGCCTT
63 CCAGCACGAATGCCTT
* * * *
108555851 CGGGACTTAGCCTGGATATAACACCAGCACAAATGCCTTCGGGACTTAGGCTGGATATAATACCA
1 CGGGACTTAGCCCGGATATAATACCAGCACAAATGCCTTCGGGACTTAGCCCGGATATAATACCA
* *
108555916 GTACGAATTCCTT
66 GCACGAATGCCTT
* * *
108555929 CGGGACTTAGCCCGGATATAATACCAGCACGAATTCCTTCGGGACTTAGCCCGGATATAACACCA
1 CGGGACTTAGCCCGGATATAATACCAGCACAAATGCCTTCGGGACTTAGCCCGGATATAATACCA
*
108555994 GCACAAATGCCTT
66 GCACGAATGCCTT
*
108556007 CGGGACTTAACCCGGATATAAT
1 CGGGACTTAGCCCGGATATAAT
108556029 TCTCCATTAT
Statistics
Matches: 160, Mismatches: 17, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
78 142 0.89
79 12 0.08
80 6 0.04
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.22
Consensus pattern (78 bp):
CGGGACTTAGCCCGGATATAATACCAGCACAAATGCCTTCGGGACTTAGCCCGGATATAATACCA
GCACGAATGCCTT
Found at i:108556024 original size:117 final size:117
Alignment explanation
Indices: 108555754--108556028 Score: 401
Period size: 117 Copynumber: 2.3 Consensus size: 117
108555744 CAAATCCAAT
* * *
108555754 CACCACCACAAA-GCATGCGGGACTTTAAGCCTGGATATAATACCAGCACAAAGCCTGCGGGACT
1 CACCAGCACAAATGCCTTCGGGAC-TTAA-CCTGGATATAATACCAGCACAAAGCCTGCGGGACT
*
108555818 TTAGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTTAGCCTGGATATAA
64 TTAGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAA
** * ** *
108555872 CACCAGCACAAATGCCTTCGGGACTTAGGCTGGATATAATACCAGTACGAATTCCTTCGGGAC-T
1 CACCAGCACAAATGCCTTCGGGACTTAACCTGGATATAATACCAGCAC-AAAGCCTGCGGGACTT
*
108555936 TAGCCCGGATATAATACCAGCACGAATTCCTTCGGGACTTAGCCCGGATATAA
65 TAGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAA
*
108555989 CACCAGCACAAATGCCTTCGGGACTTAACCCGGATATAAT
1 CACCAGCACAAATGCCTTCGGGACTTAACCTGGATATAAT
108556029 TCTCCATTAT
Statistics
Matches: 141, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
117 107 0.76
118 25 0.18
119 9 0.06
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (117 bp):
CACCAGCACAAATGCCTTCGGGACTTAACCTGGATATAATACCAGCACAAAGCCTGCGGGACTTT
AGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAA
Found at i:108558241 original size:48 final size:51
Alignment explanation
Indices: 108558033--108558439 Score: 176
Period size: 46 Copynumber: 8.6 Consensus size: 51
108558023 AGGGTATAAG
* * ** *
108558033 GCCGATCCCATGTCCCAGACATGGTCTTACACTG---GCTCATCCATCAAGT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGAACTCTCATATATC-TGT
* * * *
108558082 --CGATGCCATGTCCCAGACAT-G---TACACT-AACTATC-GACATC-GAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGAACTCTCATATATCTG-T
* * *
108558125 GCCAATGCCATGTCCCAGACATGGTCTTACTC-CAACTCTCATATATCTGT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGAACTCTCATATATCTGT
* *
108558175 GCCGATGCCATGTCCCAGACATGGTTTTACACTGATAC-CT-TTATA-C-GT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGA-ACTCTCATATATCTGT
* * *
108558223 GCCGATGCCATGTCCCAGACATGGGCTTACACTG-A----CACATCTC-GT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGAACTCTCATATATCTGT
* * * * *
108558268 AGCTGATG-CATGTCCCAGACAT-GTCTTACACTG-GCT-T-ACATGTC-GAG
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGAACTCTCATATATCTG-T
* * * *
108558315 GCCGTTG-CATGTCCCAGACAT-GTTTTACACT-AGCTCTCGT-T-TCAATGT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGAACTCTCATATATC--TGT
* * * * *
108558363 -CAG-TGCTATGTCCTAGACATGGTCTTACACT-AGCTCTCATA-ATATG-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGAACTCTCATATATCTGT
*
108558409 GCCGATG-CATGTCCCAGACAT-GTCTTGCACT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT
108558440 AGCACACAAA
Statistics
Matches: 281, Mismatches: 43, Indels: 71
0.71 0.11 0.18
Matches are distributed among these distances:
42 1 0.00
43 6 0.02
44 16 0.06
45 38 0.14
46 60 0.21
47 51 0.18
48 53 0.19
49 13 0.05
50 37 0.13
51 4 0.01
52 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.28
Consensus pattern (51 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGAACTCTCATATATCTGT
Found at i:108578152 original size:10 final size:10
Alignment explanation
Indices: 108578137--108578182 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
108578127 GTTTAATATA
108578137 TAATTAATCT
1 TAATTAATCT
108578147 TAATTAAT-T
1 TAATTAATCT
108578156 TAATTAA-CTT
1 TAATTAATC-T
* *
108578166 TACTTAATCA
1 TAATTAATCT
108578176 TAATTAA
1 TAATTAA
108578183 CTAATTTTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
9 8 0.27
10 21 0.70
11 1 0.03
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.48
Consensus pattern (10 bp):
TAATTAATCT
Found at i:108587557 original size:13 final size:13
Alignment explanation
Indices: 108587539--108587578 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
108587529 GGAGCAATTG
108587539 CACACGGGCATGT
1 CACACGGGCATGT
*
108587552 CACACGGGCGTGT
1 CACACGGGCATGT
108587565 CACACGGGCATGT
1 CACACGGGCATGT
108587578 C
1 C
108587579 CCTGTGAAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.20, C:0.33, G:0.33, T:0.15
Consensus pattern (13 bp):
CACACGGGCATGT
Found at i:108590146 original size:21 final size:21
Alignment explanation
Indices: 108590120--108590161 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
108590110 AGATTCTTTA
108590120 ATTTAAAGAATTCTCATTTGT
1 ATTTAAAGAATTCTCATTTGT
108590141 ATTTAAAGAATTCTCATTTGT
1 ATTTAAAGAATTCTCATTTGT
108590162 TGCTTGTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.48
Consensus pattern (21 bp):
ATTTAAAGAATTCTCATTTGT
Found at i:108595635 original size:14 final size:15
Alignment explanation
Indices: 108595606--108595635 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
108595596 AACTAAGACA
108595606 CAAAACATACCAATT
1 CAAAACATACCAATT
108595621 CAAAACATA-CAATT
1 CAAAACATACCAATT
108595635 C
1 C
108595636 TCACAATCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.53, C:0.27, G:0.00, T:0.20
Consensus pattern (15 bp):
CAAAACATACCAATT
Found at i:108596469 original size:48 final size:48
Alignment explanation
Indices: 108596398--108596584 Score: 239
Period size: 48 Copynumber: 3.9 Consensus size: 48
108596388 GAGAGTCTCT
* * * * *
108596398 CACCCTAAATGCCAATATCATGGCCCGAAGCTAACTCAATATATCTCG
1 CACCCGAAATGCCAATATCATGGCCCGAAGCCAAATCAATGTAACTCG
* *
108596446 CACCCGAAGTGCCAATATCATGGCCCGAAGCCAAATCAATGTAACTTG
1 CACCCGAAATGCCAATATCATGGCCCGAAGCCAAATCAATGTAACTCG
* * * * * *
108596494 CACCGGAAGTCCCAATATCATAGTCCAAAGCCAAATCAATGTAACTCG
1 CACCCGAAATGCCAATATCATGGCCCGAAGCCAAATCAATGTAACTCG
* *
108596542 CACCCGAAATGCCAATATCATTGCCCGAAGCCAAATTAATGTA
1 CACCCGAAATGCCAATATCATGGCCCGAAGCCAAATCAATGTA
108596585 TTCCCTAATG
Statistics
Matches: 119, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 119 1.00
ACGTcount: A:0.35, C:0.29, G:0.15, T:0.20
Consensus pattern (48 bp):
CACCCGAAATGCCAATATCATGGCCCGAAGCCAAATCAATGTAACTCG
Found at i:108599484 original size:79 final size:81
Alignment explanation
Indices: 108599383--108599567 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 81
108599373 ACGACTCGCT
** *
108599383 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTT-ACTCGCACGAATGCCTTCGGGA-CTTAACC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TA-TTAACTCGCACGAATGCCTTC-GGATCCTAACC
* *
108599445 CGGGTTTAGTAACTT-GCA
63 CGGATATAGTAACTTAGCA
**
108599463 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
108599527 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
108599543 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
108599568 CATCATTCGA
Statistics
Matches: 92, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
78 5 0.05
79 53 0.58
80 34 0.37
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:108599567 original size:40 final size:39
Alignment explanation
Indices: 108599376--108599567 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
108599366 GGATATAACG
* ** * *
108599376 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTT
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
108599416 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
108599456 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
108599495 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
108599535 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
108599568 CATCATTCGA
Statistics
Matches: 121, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 79 0.65
41 10 0.08
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.25
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:108605600 original size:11 final size:11
Alignment explanation
Indices: 108605584--108605650 Score: 59
Period size: 11 Copynumber: 6.1 Consensus size: 11
108605574 TTTCTTTATC
108605584 TTATTTATTTT
1 TTATTTATTTT
*
108605595 TTATTTATTAT
1 TTATTTATTTT
108605606 TTA-TTATTTT
1 TTATTTATTTT
*
108605616 AT-TTTA-TTT
1 TTATTTATTTT
*
108605625 TCAGTTTATTTCT
1 TTA-TTTATTT-T
108605638 TTATGTTATTTT
1 TTAT-TTATTTT
108605650 T
1 T
108605651 CTGATTATTT
Statistics
Matches: 44, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
9 3 0.07
10 10 0.23
11 17 0.39
12 5 0.11
13 9 0.20
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.75
Consensus pattern (11 bp):
TTATTTATTTT
Found at i:108605607 original size:14 final size:15
Alignment explanation
Indices: 108605578--108605625 Score: 53
Period size: 14 Copynumber: 3.1 Consensus size: 15
108605568 TACCCTTTTC
108605578 TTTATCTTATTTATTT
1 TTTAT-TTATTTATTT
108605594 TTTATTTA-TTATTT
1 TTTATTTATTTATTT
*
108605608 ATTATTTTATTTTATTT
1 TTTA-TTTA-TTTATTT
108605625 T
1 T
108605626 CAGTTTATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
14 9 0.33
15 7 0.26
16 5 0.19
17 6 0.22
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTATTTATTTATTT
Found at i:108605658 original size:25 final size:24
Alignment explanation
Indices: 108605613--108605660 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
108605603 TATTTATTAT
* *
108605613 TTTATTTTATTTTCAGTTTATTTC
1 TTTATGTTATTTTCAGATTATTTC
*
108605637 TTTATGTTATTTTTCTGATTATTT
1 TTTATGTTA-TTTTCAGATTATTT
108605661 AGAATCCCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.17, C:0.06, G:0.06, T:0.71
Consensus pattern (24 bp):
TTTATGTTATTTTCAGATTATTTC
Found at i:108619202 original size:13 final size:13
Alignment explanation
Indices: 108619184--108619209 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
108619174 AGAGTTTTGC
108619184 TAGCTTCTGCAGT
1 TAGCTTCTGCAGT
108619197 TAGCTTCTGCAGT
1 TAGCTTCTGCAGT
108619210 GAATAACCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.38
Consensus pattern (13 bp):
TAGCTTCTGCAGT
Found at i:108623242 original size:29 final size:29
Alignment explanation
Indices: 108623171--108623292 Score: 174
Period size: 29 Copynumber: 4.2 Consensus size: 29
108623161 AAGTCTACAT
* * *
108623171 ACATACATATGGCCCACTAGGCCC-AATG
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
108623199 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
108623228 ACATTCGTATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* *
108623257 ACATTCATACGACCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
108623286 ACATTCA
1 ACATTCA
108623293 AATACATGCT
Statistics
Matches: 84, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
28 21 0.25
29 63 0.75
ACGTcount: A:0.31, C:0.32, G:0.14, T:0.23
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:108623526 original size:16 final size:16
Alignment explanation
Indices: 108623505--108623557 Score: 88
Period size: 16 Copynumber: 3.3 Consensus size: 16
108623495 GTAGCCAAAC
*
108623505 TTTCAGCTTTTCGGCA
1 TTTCAGTTTTTCGGCA
108623521 TTTCAGTTTTTCGGCA
1 TTTCAGTTTTTCGGCA
*
108623537 TTTCAATTTTTCGGCA
1 TTTCAGTTTTTCGGCA
108623553 TTTCA
1 TTTCA
108623558 TCATTTGCCA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.15, C:0.21, G:0.15, T:0.49
Consensus pattern (16 bp):
TTTCAGTTTTTCGGCA
Found at i:108635810 original size:2 final size:2
Alignment explanation
Indices: 108635803--108635831 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
108635793 ATGCTTTATG
108635803 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
108635832 CTTAATATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:108642892 original size:43 final size:42
Alignment explanation
Indices: 108642754--108642905 Score: 155
Period size: 43 Copynumber: 3.5 Consensus size: 42
108642744 ATATGGGTTA
* *
108642754 TCGTGTAAGACCACGTCTGGGACATTGGCTTCGAT-TTAAGAGTT
1 TCGTGTAAGACCACGTCTGGGACA-TGGCATCGATATT-TGA-TT
* * *
108642798 TCGTGTAAGACCATGTCTGGAACATCGACATCG-TATTTGATT
1 TCGTGTAAGACCACGTCTGGGACAT-GGCATCGATATTTGATT
** *
108642840 TCGTGTAAGACCTTGTCTGGGACAGTGGCGTCGATATTTGATT
1 TCGTGTAAGACCACGTCTGGGACA-TGGCATCGATATTTGATT
* *
108642883 ACATGTAAGACCACGTCTGGGAC
1 TCGTGTAAGACCACGTCTGGGAC
108642906 GTTGGCATTG
Statistics
Matches: 91, Mismatches: 13, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
42 29 0.32
43 33 0.36
44 29 0.32
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (42 bp):
TCGTGTAAGACCACGTCTGGGACATGGCATCGATATTTGATT
Found at i:108649555 original size:42 final size:42
Alignment explanation
Indices: 108649446--108649609 Score: 186
Period size: 42 Copynumber: 3.9 Consensus size: 42
108649436 TACCATACCA
* * * * * *
108649446 ATGCTATATCCTAGATATGGTCTTCCATGAAATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
* *
108649488 ATGCCAATAGCCCAGCTATGGTCTTACACGAAGTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
* * *
108649531 ATGCCATATCCCAGATATAGTCTTACACGTAA-TCTCACATTG
1 ATGCCATATCCCAGATATGGTCTTACACG-AAGTCTCATATCG
* *
108649573 ATGCCATATCCCAGATATGGTCTTACATGTAGTCTCA
1 ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCA
108649610 GTAACCCTAA
Statistics
Matches: 103, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
41 1 0.01
42 65 0.63
43 37 0.36
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
Found at i:108649576 original size:85 final size:84
Alignment explanation
Indices: 108649446--108649609 Score: 202
Period size: 85 Copynumber: 1.9 Consensus size: 84
108649436 TACCATACCA
* * * * * ** *
108649446 ATGCTATATCCTAGATATGGTCTTCCATGAAATCTCGTATCGATGCCAATAGCCCAGCTATGGTC
1 ATGCCATATCCCAGATATAGTCTTACACGAAATCTCACATCGATGCC-ATAGCCCAGATATGGTC
108649511 TTACACGAAGTCTCATATCG
65 TTACACGAAGTCTCATATCG
* * *
108649531 ATGCCATATCCCAGATATAGTCTTACACGTAATCTCACATTGATGCCATATCCCAGATATGGTCT
1 ATGCCATATCCCAGATATAGTCTTACACGAAATCTCACATCGATGCCATAGCCCAGATATGGTCT
* *
108649596 TACATGTAGTCTCA
66 TACACGAAGTCTCA
108649610 GTAACCCTAA
Statistics
Matches: 66, Mismatches: 13, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
84 28 0.42
85 38 0.58
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (84 bp):
ATGCCATATCCCAGATATAGTCTTACACGAAATCTCACATCGATGCCATAGCCCAGATATGGTCT
TACACGAAGTCTCATATCG
Found at i:108652258 original size:23 final size:23
Alignment explanation
Indices: 108652206--108652259 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 23
108652196 TTGGTTTTGA
108652206 TTTATTTTTACTTTTTAATCTA-
1 TTTATTTTTACTTTTTAATCTAT
* *
108652228 TTGAATTTTATCTTTTT-ATGCTAT
1 TTTATTTTTA-CTTTTTAAT-CTAT
108652252 TTTATTTT
1 TTTATTTT
108652260 CATTATAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
22 10 0.40
23 9 0.36
24 6 0.24
ACGTcount: A:0.20, C:0.07, G:0.04, T:0.69
Consensus pattern (23 bp):
TTTATTTTTACTTTTTAATCTAT
Found at i:108664111 original size:55 final size:55
Alignment explanation
Indices: 108664025--108664151 Score: 130
Period size: 55 Copynumber: 2.3 Consensus size: 55
108664015 CGAGCCTGCC
* * * *
108664025 AAAACAACACAGGCGTGCGCCACACTCGTGTGGAAGAACCGTGGGAGAACCTATT
1 AAAACAACACGGGCGTGCGACACACTCGTGTGAAACAACCGTGGGAGAACCTATT
* * * ** *
108664080 AAAACAACACGGGCGTTCGACACGC-CAGTGTGAAACACCCGTGGTTGAACCTGTT
1 AAAACAACACGGGCGTGCGACACACTC-GTGTGAAACAACCGTGGGAGAACCTATT
**
108664135 AAATTAACACGGGCGTG
1 AAAACAACACGGGCGTG
108664152 GGGCTTGCAC
Statistics
Matches: 58, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
54 1 0.02
55 57 0.98
ACGTcount: A:0.31, C:0.25, G:0.27, T:0.17
Consensus pattern (55 bp):
AAAACAACACGGGCGTGCGACACACTCGTGTGAAACAACCGTGGGAGAACCTATT
Found at i:108668628 original size:24 final size:24
Alignment explanation
Indices: 108668575--108668622 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
108668565 GACCTTGCCT
108668575 AAGAGTACATTTGTCATAATTAAG
1 AAGAGTACATTTGTCATAATTAAG
108668599 AAGAGTACATTTGTCATAATTAAG
1 AAGAGTACATTTGTCATAATTAAG
108668623 CGGAGTTGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.08, G:0.17, T:0.33
Consensus pattern (24 bp):
AAGAGTACATTTGTCATAATTAAG
Found at i:108669320 original size:43 final size:44
Alignment explanation
Indices: 108669271--108669442 Score: 183
Period size: 43 Copynumber: 4.0 Consensus size: 44
108669261 GGTTATCGAG
* *
108669271 ATGTGATTACATGTAAGACCATGTCTAGGACATTGGCATTGTAT
1 ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATTGTAT
108669315 -TGTGATTACATGTAAGACCATATCTGGGACATTGGCATTGT-T
1 ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATTGTAT
* * * * * * * *
108669357 ATATGATTTCGTGTAAGACCCTGTCTGGGATAGT-GCATCG-AT
1 ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATTGTAT
* * *
108669399 ATGTGATAACATGTAAGACGATATCTTGGA-ATATGGCATTGTAT
1 ATGTGATTACATGTAAGACCATATCTGGGACAT-TGGCATTGTAT
108669443 GAGCTTTATG
Statistics
Matches: 103, Mismatches: 20, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
41 1 0.01
42 30 0.29
43 70 0.68
44 2 0.02
ACGTcount: A:0.28, C:0.13, G:0.24, T:0.34
Consensus pattern (44 bp):
ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATTGTAT
Found at i:108671859 original size:48 final size:48
Alignment explanation
Indices: 108671787--108671963 Score: 268
Period size: 48 Copynumber: 3.7 Consensus size: 48
108671777 TGTTATTACA
108671787 AGTTACATTGATTTGGCTTCGGACCATGATATTAGTACTTCGGGTGCG
1 AGTTACATTGATTTGGCTTCGGACCATGATATTAGTACTTCGGGTGCG
* * * *
108671835 TGTTACAATGATTTGGCTTCGGACCATGATATTAGCACTTCGGGTGCA
1 AGTTACATTGATTTGGCTTCGGACCATGATATTAGTACTTCGGGTGCG
*
108671883 AGTTACATTGATTTGGCTTCGGGCCATGATATTAGTACTTCGGGTGCG
1 AGTTACATTGATTTGGCTTCGGACCATGATATTAGTACTTCGGGTGCG
*
108671931 AGCTT-CATTGATTAGGCTTCGGGA-CATGATATT
1 AG-TTACATTGATTTGGCTTC-GGACCATGATATT
108671964 GGCACTTAGG
Statistics
Matches: 116, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
48 112 0.97
49 4 0.03
ACGTcount: A:0.21, C:0.17, G:0.27, T:0.35
Consensus pattern (48 bp):
AGTTACATTGATTTGGCTTCGGACCATGATATTAGTACTTCGGGTGCG
Found at i:108671910 original size:96 final size:96
Alignment explanation
Indices: 108671785--108671970 Score: 295
Period size: 96 Copynumber: 1.9 Consensus size: 96
108671775 CATGTTATTA
* *
108671785 CAAGTTACATTGATTTGGCTTCGGACCATGATATTAGTACTTCGGGTGCGTG-TTACAATGATTT
1 CAAGTTACATTGATTTGGCTTCGGACCATGATATTAGTACTTCGGGTGCGAGCTT-CAATGATTA
108671849 GGCTTC-GGACCATGATATTAGCACTTCGGGTG
65 GGCTTCGGGA-CATGATATTAGCACTTCGGGTG
* *
108671881 CAAGTTACATTGATTTGGCTTCGGGCCATGATATTAGTACTTCGGGTGCGAGCTTCATTGATTAG
1 CAAGTTACATTGATTTGGCTTCGGACCATGATATTAGTACTTCGGGTGCGAGCTTCAATGATTAG
*
108671946 GCTTCGGGACATGATATTGGCACTT
66 GCTTCGGGACATGATATTAGCACTT
108671971 AGGTTGTGAG
Statistics
Matches: 83, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
96 78 0.94
97 5 0.06
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (96 bp):
CAAGTTACATTGATTTGGCTTCGGACCATGATATTAGTACTTCGGGTGCGAGCTTCAATGATTAG
GCTTCGGGACATGATATTAGCACTTCGGGTG
Found at i:108692017 original size:40 final size:39
Alignment explanation
Indices: 108691973--108692078 Score: 122
Period size: 39 Copynumber: 2.7 Consensus size: 39
108691963 TATATCTGGA
* *
108691973 CTAAGATCCGAAGGCGTTCGTGCGAGTTAATAAATCCGGG
1 CTAAG-TCCGAAGGCATTCGTGCGAGTTAATAAACCCGGG
* * *
108692013 CTAAGCCCGAAGGCATTTGTGCGAGTTACTAAACCCGGG
1 CTAAGTCCGAAGGCATTCGTGCGAGTTAATAAACCCGGG
* * *
108692052 TTAAGTCCCGAAGGCATTTGAGCGAGT
1 CTAAGT-CCGAAGGCATTCGTGCGAGT
108692079 CGTTATATCC
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
39 33 0.58
40 24 0.42
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.23
Consensus pattern (39 bp):
CTAAGTCCGAAGGCATTCGTGCGAGTTAATAAACCCGGG
Found at i:108692035 original size:39 final size:40
Alignment explanation
Indices: 108691927--108692078 Score: 166
Period size: 40 Copynumber: 3.8 Consensus size: 40
108691917 TTGAATGATG
* * *
108691927 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * * *
108691967 TCTGGACTAAGAT-CCGAAGGCGTTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
108692007 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
108692046 CCCGGGTTAAGTCCCGAAGGCATTTGAGCGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
108692079 CGTTATATCC
Statistics
Matches: 93, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
39 33 0.35
40 53 0.57
41 7 0.08
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:108692077 original size:79 final size:80
Alignment explanation
Indices: 108691927--108692078 Score: 175
Period size: 79 Copynumber: 1.9 Consensus size: 80
108691917 TTGAATGATG
* * * *
108691927 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCTGGACTAAGATCCGAAGGCGTTC
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
*
108691992 GTGCGAGTTAATAAA
66 GAGCGAGTTAATAAA
* * **
108692007 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
108692069 TTGAGCGAGT
64 TCGAGCGAGT
108692079 CGTTATATCC
Statistics
Matches: 60, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
78 1 0.02
79 41 0.68
80 18 0.30
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GAGCGAGTTAATAAA
Found at i:108693627 original size:94 final size:94
Alignment explanation
Indices: 108693520--108693727 Score: 249
Period size: 94 Copynumber: 2.2 Consensus size: 94
108693510 CGCCATGTCC
* * * * *
108693520 CAGACA-GTTCTTACACTAGCTTGTATATCTCGAGGCTGGTGTACATCCCAGGCATGTCTTATAC
1 CAGACATG-TCTTACACTAGCTTGTATATCTCGAGGCCGATGCACATCCCAGACATGTCTTACAC
* *
108693584 TAGCTCTCGT-CTCAATGCTGATGCATCTCT
65 TAGCTCTCGTAATCAA-GCCGATGCATCTCT
* **
108693614 CAGACATGTCTTACACTGGCTTGTATATCTCGAGGCCGATGCATGTCCCAGACATGTCTTACACT
1 CAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATGCACATCCCAGACATGTCTTACACT
* * ** *
108693679 GGCTCTTGTAATGTAGCCGATGCATGTCT
66 AGCTCTCGTAATCAAGCCGATGCATCTCT
108693708 CAGACATGTCTTACACTAGC
1 CAGACATGTCTTACACTAGC
108693728 ACACATATCA
Statistics
Matches: 96, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
94 93 0.97
95 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.31
Consensus pattern (94 bp):
CAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATGCACATCCCAGACATGTCTTACACT
AGCTCTCGTAATCAAGCCGATGCATCTCT
Found at i:108693666 original size:48 final size:48
Alignment explanation
Indices: 108693513--108693727 Score: 183
Period size: 46 Copynumber: 4.6 Consensus size: 48
108693503 AAGCTGACGC
* *
108693513 CATGTCCCAGACA-GTTCTTACACTAGCTTGTATATCTCGAGGCTGGTG
1 CATGTCCCAGACATG-TCTTACACTAGCTTGTATATCTCGAGGCCGATG
* ** * * * ** * * *
108693561 TACATCCCAGGCATGTCTTATACTAGC-TCT-CGTCTCAATGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
* * *
108693607 CATCTCTCAGACATGTCTTACACTGGCTTGTATATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
* *
108693655 CATGTCCCAGACATGTCTTACACTGGCTCTTGTA-ATGT--A-GCCGATG
1 CATGTCCCAGACATGTCTTACACTAG--CTTGTATATCTCGAGGCCGATG
*
108693701 CATGTCTCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
108693728 ACACATATCA
Statistics
Matches: 133, Mismatches: 29, Indels: 14
0.76 0.16 0.08
Matches are distributed among these distances:
44 1 0.01
46 62 0.47
47 5 0.04
48 55 0.41
49 4 0.03
50 6 0.05
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
Found at i:108694203 original size:30 final size:30
Alignment explanation
Indices: 108694167--108694223 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
108694157 CACAATTTGG
*
108694167 CAAAAATGACCG-TTTTTCCCTTAGGCTTTA
1 CAAAAATGA-CGATTTTACCCTTAGGCTTTA
*
108694197 CAAAAATTACGATTTTACCCTTAGGCT
1 CAAAAATGACGATTTTACCCTTAGGCT
108694224 CGTAAATCGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 2 0.08
30 22 0.92
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.35
Consensus pattern (30 bp):
CAAAAATGACGATTTTACCCTTAGGCTTTA
Found at i:108694330 original size:20 final size:20
Alignment explanation
Indices: 108694305--108694343 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
108694295 ACAATTTCAA
108694305 TTATTTCACATA-TTTACAAC
1 TTATTTCACA-ACTTTACAAC
*
108694325 TTATTTTACAACTTTACAA
1 TTATTTCACAACTTTACAA
108694344 AATAGCCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.36, C:0.18, G:0.00, T:0.46
Consensus pattern (20 bp):
TTATTTCACAACTTTACAAC
Found at i:108695969 original size:48 final size:48
Alignment explanation
Indices: 108695898--108696047 Score: 223
Period size: 48 Copynumber: 3.1 Consensus size: 48
108695888 GACATGTTAT
* *
108695898 TGCGAGTTACATTGATTTGGCTTCGGGCCATAATATTAGTACTTCAGG
1 TGCGAGTTACATTGATTTGGCTTCGGGCCATGATATTAGCACTTCAGG
*
108695946 TGCGAGTTACATTGATTTGGCTTCGGGCCATGATATTAGCACTTCGGG
1 TGCGAGTTACATTGATTTGGCTTCGGGCCATGATATTAGCACTTCAGG
* *
108695994 TGCGAGCTT-TATTGATTTGGCTTCGGGCCATGATATTGGCACTT-AGGG
1 TGCGAG-TTACATTGATTTGGCTTCGGGCCATGATATTAGCACTTCA-GG
108696042 TGCGAG
1 TGCGAG
108696048 ACTTCTGAGT
Statistics
Matches: 94, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
48 92 0.98
49 2 0.02
ACGTcount: A:0.19, C:0.17, G:0.29, T:0.34
Consensus pattern (48 bp):
TGCGAGTTACATTGATTTGGCTTCGGGCCATGATATTAGCACTTCAGG
Found at i:108699077 original size:605 final size:605
Alignment explanation
Indices: 108697918--108699131 Score: 2160
Period size: 605 Copynumber: 2.0 Consensus size: 605
108697908 TGGTCCCACA
* * *
108697918 TTAGCTAGTCTGAGTCACAATATAACCCAAGTAAGTTAAAGGCAATATGCTTACCTTTAGCTTTG
1 TTAGCGAGTCTGAGTCACAATATAACCCAAGTAAGTCAAAGGCAATATGCTTACCTTCAGCTTTG
* *
108697983 CGCTATTTTCATATCATTCTAGCCCACACATTTGACTAGTCGGAAGGAGAGAATGAGGGTCGTTA
66 CGCTATTTTCATATCATTCTAGCCCACACATTTGACTAATCGGAAGGAGAGAACGAGGGTCGTTA
*
108698048 GTACTTCGGAAGCCAATTTCTAATGGAGTATGGAGACATGCCACCCAGTCGATGTCACTTACTTC
131 GTACTTCGGAAGCCAATTTCTAATGGAGTATGGAGACATGCCACCCAGTCAATGTCACTTACTTC
*
108698113 ATGGTTCACTGTTGTTGCCACCAGCCTGATCGAAACAGGAAGGGCCTTATCTGTATGGGTCCCTA
196 ATGGTTCACTGTTGTTGCCACCAGCCCGATCGAAACAGGAAGGGCCTTATCTGTATGGGTCCCTA
*
108698178 CGTGACTCATCTAATGAGGTACTTTGGGCTTCTTGACACTTCGGAGTAGACTTCATCCTTCATTC
261 CGTGACTCATCTAATGAGGTACTTTGGGCTTCTCGACACTTCGGAGTAGACTTCATCCTTCATTC
*
108698243 TAATGGGACTGATGGTCCCATAAGGGTTATCTATTATGAACCACATGCGGATGATTCAATGTCAG
326 TAATGGGACTAATGGTCCCATAAGGGTTATCTATTATGAACCACATGCGGATGATTCAATGTCAG
*
108698308 CATAAAGTGGGTCCAAATTGGTATACACTATTTCACCCGAATCCTAAGAATGGGCATGTGGAGCT
391 CACAAAGTGGGTCCAAATTGGTATACACTATTTCACCCGAATCCTAAGAATGGGCATGTGGAGCT
* **
108698373 CCCAGAAGAGGACCCACCTCAACATGTAGACTCAGCCTAATCCTCTCCTCCTCTGAGTCACTCCA
456 CCCAGAAGAGGACCCACCTCAACATGCAGACTCAGCCTAATCCTCTCCTCCTCCAAGTCACTCCA
*
108698438 CTGCTCATATTCAGTCATGCTTAGGGATATCTATCGCACATAGCAGTAGCAGTCCGAGCAGATGG
521 CTGCTCATATTCAGTCATGCTTAGGGACATCTATCGCACATAGCAGTAGCAGTCCGAGCAGATGG
*
108698503 ACCGCCTTAAGCAACAATAG
586 ACCGCCTTAAGCAACAACAG
108698523 TTAGCGAGTCTGAGTCACAATATAACCCAAGTAAGTCAAAGGCAATATGCTTACCTTCAGCTTTG
1 TTAGCGAGTCTGAGTCACAATATAACCCAAGTAAGTCAAAGGCAATATGCTTACCTTCAGCTTTG
*
108698588 CGCTATTTTCATATCATTCTAGCCCACACATTTGACTAATCGGAAGGAGAGAACGAGGGTTGTTA
66 CGCTATTTTCATATCATTCTAGCCCACACATTTGACTAATCGGAAGGAGAGAACGAGGGTCGTTA
* *
108698653 GTACTTTGGACA-CCTATTTCTAATGGAGTATGGAGACATGCCACCCAGTCAATGTCACTTACTT
131 GTACTTCGGA-AGCCAATTTCTAATGGAGTATGGAGACATGCCACCCAGTCAATGTCACTTACTT
*
108698717 CATGGTTCACTGTTGTTGCCACTAGCCCGATCGAAACAGGAAGGGCCTTATCTGTATGGGTCCCT
195 CATGGTTCACTGTTGTTGCCACCAGCCCGATCGAAACAGGAAGGGCCTTATCTGTATGGGTCCCT
*
108698782 ACGTGACTCGTCTAATGAGGTACTTTGGGCTTCTCGACACTTCGGAGTAGACTTCATCCTTCATT
260 ACGTGACTCATCTAATGAGGTACTTTGGGCTTCTCGACACTTCGGAGTAGACTTCATCCTTCATT
*
108698847 CTAATGGGACTAATGGTCCCGTAAGGGTTATCTATTATGAACCACATGCGGATGATTCAATGTCA
325 CTAATGGGACTAATGGTCCCATAAGGGTTATCTATTATGAACCACATGCGGATGATTCAATGTCA
*
108698912 GCACAAAGTGGGTCCAAATTGGTATACACTATTTCATCCGAATCCTAAGAATGGGCATGTGGAGC
390 GCACAAAGTGGGTCCAAATTGGTATACACTATTTCACCCGAATCCTAAGAATGGGCATGTGGAGC
* * *
108698977 TCCCAGAAGAGGACCCACCTCAACATGCAGACTCAGCCTGATCTTTTCCTCCTCCAAGTCACTCC
455 TCCCAGAAGAGGACCCACCTCAACATGCAGACTCAGCCTAATCCTCTCCTCCTCCAAGTCACTCC
* * *
108699042 ACTGCTCATATTCAGTCATGCTTAGGGACATCTATCGCACGTAGCAGTAGTAGTCCGAGCAGATT
520 ACTGCTCATATTCAGTCATGCTTAGGGACATCTATCGCACATAGCAGTAGCAGTCCGAGCAGATG
108699107 GACCGCCTTAAGCAACAACAG
585 GACCGCCTTAAGCAACAACAG
108699128 TTAG
1 TTAG
108699132 AGCAGATCAA
Statistics
Matches: 580, Mismatches: 28, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
605 579 1.00
606 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (605 bp):
TTAGCGAGTCTGAGTCACAATATAACCCAAGTAAGTCAAAGGCAATATGCTTACCTTCAGCTTTG
CGCTATTTTCATATCATTCTAGCCCACACATTTGACTAATCGGAAGGAGAGAACGAGGGTCGTTA
GTACTTCGGAAGCCAATTTCTAATGGAGTATGGAGACATGCCACCCAGTCAATGTCACTTACTTC
ATGGTTCACTGTTGTTGCCACCAGCCCGATCGAAACAGGAAGGGCCTTATCTGTATGGGTCCCTA
CGTGACTCATCTAATGAGGTACTTTGGGCTTCTCGACACTTCGGAGTAGACTTCATCCTTCATTC
TAATGGGACTAATGGTCCCATAAGGGTTATCTATTATGAACCACATGCGGATGATTCAATGTCAG
CACAAAGTGGGTCCAAATTGGTATACACTATTTCACCCGAATCCTAAGAATGGGCATGTGGAGCT
CCCAGAAGAGGACCCACCTCAACATGCAGACTCAGCCTAATCCTCTCCTCCTCCAAGTCACTCCA
CTGCTCATATTCAGTCATGCTTAGGGACATCTATCGCACATAGCAGTAGCAGTCCGAGCAGATGG
ACCGCCTTAAGCAACAACAG
Found at i:108699340 original size:6 final size:6
Alignment explanation
Indices: 108699331--108699424 Score: 57
Period size: 6 Copynumber: 14.3 Consensus size: 6
108699321 TTATGTTTTA
* *
108699331 TTTATT TTTATT TTTACTT TTACTTTT TTTATT TTTATT TTTATT TGTTTTT
1 TTTATT TTTATT TTTA-TT TT--TATT TTTATT TTTATT TTTATT T-TTATT
*
108699383 ACTTTA-T TTTATT TTCCGTATT TATATGT TTTA-T TTTATT TT
1 --TTTATT TTTATT TT---TATT TTTAT-T TTTATT TTTATT TT
108699425 ATTATGCACT
Statistics
Matches: 70, Mismatches: 6, Indels: 24
0.70 0.06 0.24
Matches are distributed among these distances:
5 9 0.13
6 35 0.50
7 13 0.19
8 6 0.09
9 7 0.10
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.76
Consensus pattern (6 bp):
TTTATT
Found at i:108699359 original size:15 final size:15
Alignment explanation
Indices: 108699341--108699397 Score: 69
Period size: 16 Copynumber: 3.7 Consensus size: 15
108699331 TTTATTTTTA
*
108699341 TTTTTACTTTTACTT
1 TTTTTATTTTTACTT
*
108699356 TTTTTATTTTTATTT
1 TTTTTATTTTTACTT
*
108699371 TTATTTGTTTTTACTT
1 TT-TTTATTTTTACTT
108699387 TATTTTATTTT
1 T-TTTTATTTT
108699398 CCGTATTTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
15 15 0.43
16 19 0.54
17 1 0.03
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.79
Consensus pattern (15 bp):
TTTTTATTTTTACTT
Found at i:108699361 original size:21 final size:22
Alignment explanation
Indices: 108699326--108699396 Score: 85
Period size: 21 Copynumber: 3.4 Consensus size: 22
108699316 TCAGTTTATG
108699326 TTTTATTTATTTTTATTTTTAC
1 TTTTATTTATTTTTATTTTTAC
* *
108699348 TTTTACTT-TTTTTATTTTTAT
1 TTTTATTTATTTTTATTTTTAC
* *
108699369 TTTTATTTGTTTTTA-CTTTA-
1 TTTTATTTATTTTTATTTTTAC
108699389 TTTTATTT
1 TTTTATTT
108699397 TCCGTATTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
20 8 0.18
21 23 0.52
22 13 0.30
ACGTcount: A:0.15, C:0.04, G:0.01, T:0.79
Consensus pattern (22 bp):
TTTTATTTATTTTTATTTTTAC
Found at i:108699388 original size:27 final size:27
Alignment explanation
Indices: 108699326--108699397 Score: 89
Period size: 27 Copynumber: 2.7 Consensus size: 27
108699316 TCAGTTTATG
108699326 TTTTATTTATTTTTATTTTTACTTTTA
1 TTTTATTTATTTTTATTTTTACTTTTA
108699353 CTTTT-TTTATTTTTATTTTTA-TTTGT-
1 -TTTTATTTATTTTTATTTTTACTTT-TA
108699379 TTTTACTTTA-TTTTATTTT
1 TTTTA-TTTATTTTTATTTT
108699398 CCGTATTTAT
Statistics
Matches: 41, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
25 4 0.10
26 12 0.29
27 21 0.51
28 4 0.10
ACGTcount: A:0.15, C:0.04, G:0.01, T:0.79
Consensus pattern (27 bp):
TTTTATTTATTTTTATTTTTACTTTTA
Found at i:108699415 original size:32 final size:32
Alignment explanation
Indices: 108699348--108699427 Score: 92
Period size: 32 Copynumber: 2.5 Consensus size: 32
108699338 TTATTTTTAC
* * *
108699348 TTTTACTTT-TTTTATTTTTATTTTTATTTGT
1 TTTTACTTTATTTTATTTTCATATTTATATGT
*
108699379 TTTTACTTTATTTTATTTTCCGTATTTATATG-
1 TTTTACTTTATTTTATTTT-CATATTTATATGT
*
108699411 TTTTATTTTATTTTATT
1 TTTTACTTTATTTTATT
108699428 ATGCACTTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
31 9 0.21
32 25 0.60
33 8 0.19
ACGTcount: A:0.16, C:0.05, G:0.04, T:0.75
Consensus pattern (32 bp):
TTTTACTTTATTTTATTTTCATATTTATATGT
Found at i:108701583 original size:46 final size:46
Alignment explanation
Indices: 108701484--108701657 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 46
108701474 CAGAGTAAGC
* * * * *
108701484 CAGTGTAAGACCATGTCCGGGACATGACATCAGCATTGAGACGAGGG
1 CAGTGTAAGACCATGTCTGGGACATG-CATCAGCCTAGAGACGAAGT
*
108701531 CTAGTGTAAGA-CATGTCTGGGACATGCATCAGCCTCGAGACGTAAGT
1 C-AGTGTAAGACCATGTCTGGGACATGCATCAGCCTAGAGACG-AAGT
* * *
108701578 CAGTGTAAGA-CATGTCTGGGACATGCAT-GGGCTAAGAGATGATAGT
1 CAGTGTAAGACCATGTCTGGGACATGCATCAGCCT-AGAGACGA-AGT
* *
108701624 CAGTGTAAGACCATGTCTAGAACATGGCATCAGC
1 CAGTGTAAGACCATGTCTGGGACAT-GCATCAGC
108701658 ATTTAACCCA
Statistics
Matches: 107, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
45 4 0.04
46 59 0.55
47 30 0.28
48 13 0.12
49 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.29, T:0.21
Consensus pattern (46 bp):
CAGTGTAAGACCATGTCTGGGACATGCATCAGCCTAGAGACGAAGT
Found at i:108702754 original size:21 final size:21
Alignment explanation
Indices: 108702709--108702755 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
108702699 GGGGCATGGG
*
108702709 CGTGTTACCCTTCCACACGGG
1 CGTGTTACCCTTCCACACGGA
* **
108702730 CGTGTTACCTTTTTACACGGA
1 CGTGTTACCCTTCCACACGGA
108702751 CGTGT
1 CGTGT
108702756 GCCCTGTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.15, C:0.30, G:0.23, T:0.32
Consensus pattern (21 bp):
CGTGTTACCCTTCCACACGGA
Found at i:108703134 original size:14 final size:14
Alignment explanation
Indices: 108703111--108703145 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
108703101 CAAAAAATTG
108703111 AAAAAA-GAAGTGA
1 AAAAAATGAAGTGA
108703124 AAAAAATGAAGTGA
1 AAAAAATGAAGTGA
108703138 AAGAAAAT
1 AA-AAAAT
108703146 TTTGAGCTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 6 0.30
14 9 0.45
15 5 0.25
ACGTcount: A:0.69, C:0.00, G:0.20, T:0.11
Consensus pattern (14 bp):
AAAAAATGAAGTGA
Found at i:108713082 original size:282 final size:282
Alignment explanation
Indices: 108712561--108713089 Score: 810
Period size: 282 Copynumber: 1.9 Consensus size: 282
108712551 GCTTCAGTTC
* * *
108712561 AAAGAGCTGCATCTAGTAATAGAAGGCCCGAATCTGAGGGTAGAGGTGAGGAGGTAGAAGAAGCC
1 AAAGAGCTGAATCTAGTAATAGAAGGCCCGAATCTGAGGGTAGAGGTGAGGAGGCAAAAGAAGCC
* * * *
108712626 TTTTTCCAAATGATGAATGAGTGGTTTACAGAATTTATAAGAATAAATCTACTTTACAACAACCT
66 TTTTTCCAAATGATGAATGAGTGGTTTACAGAATTTATAAAAACAAATCTACTATACAAAAACCT
* * * *
108712691 CCCCCACCTGCTCCTCAACAAGTTTTAGAGATGCTACAGGGTGCTGAACATTTTAGAATCGGTAA
131 CCCCCACCTGCTCCTCAACAAGTTTCAGAGATGCCACAGGGTGCTAAACATTTTAGAATCGATAA
* * *
108712756 GCCTCCAGTGGATAAAGTTCGTAGGTATAGGGCAGAGAAATTTAGGGCTACTTCTAGCGATGATC
196 GCCTCCAGTGGATAAAATTCGTAAGTATAGGACAGAGAAATTTAGGGCTACTTCTAGCGATGATC
108712821 TAGAGAGGGCAAGCTTTGGTTT
261 TAGAGAGGGCAAGCTTTGGTTT
* *
108712843 AAAGAGCTGAATCTAGTAGTAGAAGGCCCGAATCTGAGGGTCGAGGTGAGGAGGCAAAAGAAGCC
1 AAAGAGCTGAATCTAGTAATAGAAGGCCCGAATCTGAGGGTAGAGGTGAGGAGGCAAAAGAAGCC
* *
108712908 TTTTTCCAAATGATGAATGAGTGGTTTATAGAATTTATAAAAACAAATCTGCTATACAAAAACCT
66 TTTTTCCAAATGATGAATGAGTGGTTTACAGAATTTATAAAAACAAATCTACTATACAAAAACCT
* * * *
108712973 CCCCCACTTGCTCTTCAATC-GGTTTCAGAGATGCCATAGGGTGCTAAACATTTTAGAATCGATA
131 CCCCCACCTGCTCCTCAA-CAAGTTTCAGAGATGCCACAGGGTGCTAAACATTTTAGAATCGATA
* *
108713037 AGCCTCTAGTGGATAAAATTCGTAAGTAT-GAGACAGAGGAATTTAGGGCTACT
195 AGCCTCCAGTGGATAAAATTCGTAAGTATAG-GACAGAGAAATTTAGGGCTACT
108713090 GCCGACGATA
Statistics
Matches: 221, Mismatches: 24, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
281 1 0.00
282 219 0.99
283 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (282 bp):
AAAGAGCTGAATCTAGTAATAGAAGGCCCGAATCTGAGGGTAGAGGTGAGGAGGCAAAAGAAGCC
TTTTTCCAAATGATGAATGAGTGGTTTACAGAATTTATAAAAACAAATCTACTATACAAAAACCT
CCCCCACCTGCTCCTCAACAAGTTTCAGAGATGCCACAGGGTGCTAAACATTTTAGAATCGATAA
GCCTCCAGTGGATAAAATTCGTAAGTATAGGACAGAGAAATTTAGGGCTACTTCTAGCGATGATC
TAGAGAGGGCAAGCTTTGGTTT
Found at i:108715755 original size:41 final size:41
Alignment explanation
Indices: 108715710--108715794 Score: 152
Period size: 41 Copynumber: 2.1 Consensus size: 41
108715700 TCATTGATCA
108715710 TGAAAGTTTGAAGTATTTGACGTCACAGAAAGATTTGAACT
1 TGAAAGTTTGAAGTATTTGACGTCACAGAAAGATTTGAACT
* *
108715751 TGAAAGTTTGATGTATTTGATGTCACAGAAAGATTTGAACT
1 TGAAAGTTTGAAGTATTTGACGTCACAGAAAGATTTGAACT
108715792 TGA
1 TGA
108715795 GACAATGCAG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.35, C:0.08, G:0.22, T:0.34
Consensus pattern (41 bp):
TGAAAGTTTGAAGTATTTGACGTCACAGAAAGATTTGAACT
Found at i:108725161 original size:40 final size:40
Alignment explanation
Indices: 108725112--108725359 Score: 277
Period size: 40 Copynumber: 6.2 Consensus size: 40
108725102 TCTTCGGAAT
* * *
108725112 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *** * *
108725151 TTAACCCGGATTTGGTAACTTGCACAAATGCCTCCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
108725191 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
108725231 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTAGCACAAATGCCTTCGGGTC
* * *
108725271 TTAGCCCGGGTATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *
108725311 TTAGCCTGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTAGCACAAATGCCTTCGGGTC
108725351 TTAGCCCGG
1 TTAGCCCGG
108725360 GTATCATTCA
Statistics
Matches: 171, Mismatches: 34, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
39 4 0.02
40 165 0.96
41 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
Found at i:108725260 original size:80 final size:80
Alignment explanation
Indices: 108725103--108725359 Score: 347
Period size: 80 Copynumber: 3.2 Consensus size: 80
108725093 AACCGAGTCT
* * * ** * * **
108725103 CTTCGGAATTTAG-CCGGATATAACCACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGATTTGG
1 CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAA
* * *
108725166 TAACTTGCACAAATGC
65 TCACTAGCATAAATGC
* *
108725182 CTCCGGGTCTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAAT
1 CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAAT
108725247 CACTAGCATAAATGC
66 CACTAGCATAAATGC
* *
108725262 CTTCGGGACTTAGCCCGGGTATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCTGGATATAAT
1 CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAAT
108725327 CACTAGCATAAATGC
66 CACTAGCATAAATGC
108725342 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGG
108725360 GTATCATTCA
Statistics
Matches: 158, Mismatches: 18, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
79 9 0.06
80 147 0.93
81 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAAT
CACTAGCATAAATGC
Found at i:108725360 original size:80 final size:80
Alignment explanation
Indices: 108725139--108725363 Score: 351
Period size: 80 Copynumber: 2.8 Consensus size: 80
108725129 CAAGCACAAT
* * ** * * * * * *
108725139 TGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCACAAATGCCTCCGGGTCTTAGCCCGGATAT
1 TGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGGTAT
108725204 AACAACTCGCACGAA
66 AACAACTCGCACGAA
108725219 TGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGGTAT
1 TGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGGTAT
108725284 AACAACTCGCACGAA
66 AACAACTCGCACGAA
*
108725299 TGCCTTCGGGTCTTAGCCTGGATATAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGGTAT
1 TGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGGTAT
108725364 CATTCAAACG
Statistics
Matches: 134, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
80 134 1.00
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (80 bp):
TGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGGTAT
AACAACTCGCACGAA
Found at i:108729923 original size:280 final size:281
Alignment explanation
Indices: 108729422--108729990 Score: 1097
Period size: 280 Copynumber: 2.0 Consensus size: 281
108729412 TAAAGGCACC
108729422 TAGGTTTAACCCACTCATTCCATAAAAGCCTACCTCCATAATTAACCCTTAGTGAACCCCCTTGA
1 TAGGTTTAACCCACTCATTCCATAAAAGCCTACCTCCATAATTAACCCTTAGTGAACCCCCTTGA
108729487 GCCTAACAAGCCATTAATTGATTTAACTTCAATATTAACCCATAACCCATTATTGTTGAAATCCC
66 GCCTAACAAGCCATTAATTGATTTAACTTCAATATTAACCCATAACCCATTATTGTTGAAATCCC
108729552 CTAAGTTAATTTGATCCCTATTTTTGTCGAGATTTGATTTGAATAAATTACTTAGCTATGTTTTA
131 CTAAGTTAATTTGATCCCTATTTTTGTCGAGATTTGATTTGAATAAATTACTTAGCTATGTTTTA
108729617 TTTTTGATATCTAGCCTATGTTACTTGACTTGTTCTT-AAAAAAAATACATACATATTAGTAGTA
196 TTTTTGATATCTAGCCTATGTTACTTGACTTGTTCTTAAAAAAAAATACATACATATTAGTAGTA
108729681 ATTCTTTGTTTTTGATCTTAA
261 ATTCTTTGTTTTTGATCTTAA
*
108729702 TAGGTTTAACCCACTCATTCCATAAAAGCCTACCTCCATAATTAACCCTTAGTGAACCCTCTTGA
1 TAGGTTTAACCCACTCATTCCATAAAAGCCTACCTCCATAATTAACCCTTAGTGAACCCCCTTGA
*
108729767 GCCTAACAAGCCATTAATTGATTTAACTTCAATATTAACCCATAGCCCATTATTGTTGAAATCCC
66 GCCTAACAAGCCATTAATTGATTTAACTTCAATATTAACCCATAACCCATTATTGTTGAAATCCC
108729832 CTAAGTTAATTTGATCCCTATTTTTGTCGAGATTTGATTTGAATAAATTACTTAGCTATGTTTTA
131 CTAAGTTAATTTGATCCCTATTTTTGTCGAGATTTGATTTGAATAAATTACTTAGCTATGTTTTA
108729897 TTTTTGATATCTAGCCTATGTTACTTGACTTGTTCTTAAAAAAAAATACATACATATTAGTAGTA
196 TTTTTGATATCTAGCCTATGTTACTTGACTTGTTCTTAAAAAAAAATACATACATATTAGTAGTA
108729962 ATTCTTTGTTTTTGATCTTAA
261 ATTCTTTGTTTTTGATCTTAA
*
108729983 -AAGTTTAA
1 TAGGTTTAA
108729991 ATCCATATTC
Statistics
Matches: 285, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
280 237 0.83
281 48 0.17
ACGTcount: A:0.31, C:0.19, G:0.11, T:0.39
Consensus pattern (281 bp):
TAGGTTTAACCCACTCATTCCATAAAAGCCTACCTCCATAATTAACCCTTAGTGAACCCCCTTGA
GCCTAACAAGCCATTAATTGATTTAACTTCAATATTAACCCATAACCCATTATTGTTGAAATCCC
CTAAGTTAATTTGATCCCTATTTTTGTCGAGATTTGATTTGAATAAATTACTTAGCTATGTTTTA
TTTTTGATATCTAGCCTATGTTACTTGACTTGTTCTTAAAAAAAAATACATACATATTAGTAGTA
ATTCTTTGTTTTTGATCTTAA
Found at i:108732965 original size:40 final size:40
Alignment explanation
Indices: 108732920--108733049 Score: 172
Period size: 40 Copynumber: 3.2 Consensus size: 40
108732910 CGGAATATAA
108732920 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
108732960 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
* * *
108733000 CCGGATATAGCCACTTGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
108733040 CCGGATATAA
1 CCGGATATAA
108733050 TTTCCAGCAT
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
40 74 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
Found at i:108733064 original size:40 final size:39
Alignment explanation
Indices: 108732936--108733086 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 39
108732926 ATAACCATGT
* * *
108732936 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-C
** *
108732976 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCACTT
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-C
* **
108733016 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACC
* *
108733055 AGCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 -GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
108733087 CATTCAATTT
Statistics
Matches: 94, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
39 15 0.16
40 77 0.82
41 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (39 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACC
Found at i:108733070 original size:80 final size:79
Alignment explanation
Indices: 108732920--108733086 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
108732910 CGGAATATAA
*
108732920 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATG
1 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
108732985 CCTTCGGGTCTTAGC
66 CCTTCGGG-CTTAGC
* * * ** *
108733000 CCGGATATAGCCACT-TGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA
*
108733062 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
108733079 CCGGATAT
1 CCGGATAT
108733087 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 17 0.22
80 58 0.76
81 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (79 bp):
CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:108740717 original size:40 final size:40
Alignment explanation
Indices: 108740672--108740838 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
108740662 CGGAATATAA
*
108740672 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-AGCACAAATGCCTTCGGGTCTTAGC
* ** * *
108740712 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
108740752 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * *
108740792 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
108740831 CCGGATAT
1 CCGGATAT
108740839 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 13 0.12
40 91 0.87
41 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:108740822 original size:80 final size:79
Alignment explanation
Indices: 108740688--108740838 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
108740678 ATAACCATGT
*
108740688 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGG-CTTAGCC
108740753 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
108740768 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGCTTAGC
108740831 CCGGATAT
64 CCGGATAT
108740839 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:108749607 original size:40 final size:40
Alignment explanation
Indices: 108749562--108749728 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
108749552 CGGAATATAA
108749562 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
108749602 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
108749642 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
108749682 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
108749721 CCGGATAT
1 CCGGATAT
108749729 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:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:108757613 original size:40 final size:40
Alignment explanation
Indices: 108757568--108757734 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
108757558 CGGAATATAA
108757568 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
108757608 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
108757648 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
108757688 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
108757727 CCGGATAT
1 CCGGATAT
108757735 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:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:108762057 original size:20 final size:21
Alignment explanation
Indices: 108762028--108762073 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
108762018 CTCGTACCCT
*
108762028 AATTTCTGAAAT-TGTTGATG
1 AATTTCTGAAATCTATTGATG
*
108762048 AATTTTTGAAATGCTATTGATG
1 AATTTCTGAAAT-CTATTGATG
108762070 AATT
1 AATT
108762074 CATGTGTTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 11 0.50
22 11 0.50
ACGTcount: A:0.33, C:0.04, G:0.17, T:0.46
Consensus pattern (21 bp):
AATTTCTGAAATCTATTGATG
Found at i:108762849 original size:47 final size:47
Alignment explanation
Indices: 108762754--108762883 Score: 136
Period size: 47 Copynumber: 2.8 Consensus size: 47
108762744 GTGCGAATAA
* * * *
108762754 TACCTTGATTTGGCTACGGGCCATGGTATAGATATTCAGAAAGGAGT
1 TACCTTGATTTGGCTACGGGCCATGATATAGGTACTCAGAAAGAAGT
* * ** *
108762801 TACCTTGATTTCGCTACGGGCCATGATATAGGTACTCCGGGATAAGT
1 TACCTTGATTTGGCTACGGGCCATGATATAGGTACTCAGAAAGAAGT
* **
108762848 TACCTTGGTTTGGCTATAGGCCAT-AGTATAGGTACT
1 TACCTTGATTTGGCTACGGGCCATGA-TATAGGTACT
108762884 TATCAATTGT
Statistics
Matches: 69, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
46 1 0.01
47 68 0.99
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.32
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGATATAGGTACTCAGAAAGAAGT
Found at i:108764468 original size:45 final size:45
Alignment explanation
Indices: 108764404--108764494 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
108764394 ATAAATTGCG
*
108764404 ATAGTGTGATGATTCTTAACAGTTAAAATGTGTTTGTCGTATAGC
1 ATAGTGTAATGATTCTTAACAGTTAAAATGTGTTTGTCGTATAGC
108764449 ATAGTGTAATGATTCTTAACAGTTAAAATGTGTTTGTCGTATAGC
1 ATAGTGTAATGATTCTTAACAGTTAAAATGTGTTTGTCGTATAGC
108764494 A
1 A
108764495 AATGGATCCC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.40
Consensus pattern (45 bp):
ATAGTGTAATGATTCTTAACAGTTAAAATGTGTTTGTCGTATAGC
Found at i:108772033 original size:28 final size:29
Alignment explanation
Indices: 108771922--108772046 Score: 171
Period size: 29 Copynumber: 4.3 Consensus size: 29
108771912 GAAAGCATGT
* * * *
108771922 ATATGAATCTGATGTGGGCCTAATAGGTC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
108771951 GTATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
108771980 ATAAGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
108772009 ATATGAATGAGA-TTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
108772037 ATATGCATGT
1 ATATGAATGT
108772047 ATGTGGACTT
Statistics
Matches: 85, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
28 24 0.28
29 61 0.72
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.30
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:108773856 original size:37 final size:37
Alignment explanation
Indices: 108773806--108773878 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
108773796 TACGAAGTCT
108773806 TACCCGGACATAATCTCCACACATAGTCATCGGGTCG
1 TACCCGGACATAATCTCCACACATAGTCATCGGGTCG
*
108773843 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACATAGTCATCGGGTC
108773879 TCACCCGAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.26, C:0.33, G:0.19, T:0.22
Consensus pattern (37 bp):
TACCCGGACATAATCTCCACACATAGTCATCGGGTCG
Found at i:108774028 original size:49 final size:49
Alignment explanation
Indices: 108773961--108774211 Score: 475
Period size: 49 Copynumber: 5.1 Consensus size: 49
108773951 TTTACCACAT
*
108773961 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
108774010 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
108774059 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
108774108 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
108774157 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
108774206 ATATAT
1 ATATAT
108774212 TATTATGTAC
Statistics
Matches: 197, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 197 1.00
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.34
Consensus pattern (49 bp):
ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:108783482 original size:24 final size:24
Alignment explanation
Indices: 108783448--108783502 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
108783438 TAATTTATAG
*
108783448 AAATTAATAATTCAATAAACTAAA
1 AAATTAATAATTCAATAAAATAAA
* * *
108783472 AAATTACTAATTGAATAAAATTAA
1 AAATTAATAATTCAATAAAATAAA
108783496 AAATTAA
1 AAATTAA
108783503 GAGAAACTAG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.31
Consensus pattern (24 bp):
AAATTAATAATTCAATAAAATAAA
Found at i:108783901 original size:92 final size:93
Alignment explanation
Indices: 108783734--108783903 Score: 206
Period size: 92 Copynumber: 1.8 Consensus size: 93
108783724 ATTCTATGCT
*
108783734 AATTGATAAAGATTAATATATAAATTATAATAGATATAATCATATATTAAAGATTATCTTCTTAT
1 AATTGATAAAGATTAACATAT-AATTATAATAGATATAATCATATATTAAAGATTATCTTCTTAT
** *
108783799 TATCATTAAAAACTTATCAAAAATCCTAA
65 TAAAAATAAAAACTTATCAAAAATCCTAA
* *
108783828 AATTGATAATA-ATTAACATAT-ATTATAATGGATATAATTATATATTAATA-ATTATCATT-TT
1 AATTGATAA-AGATTAACATATAATTATAATAGATATAATCATATATTAA-AGATTATC-TTCTT
108783889 -TTAAAAAATAAAAAC
63 ATT-AAAAATAAAAAC
108783904 ATTTATTCTA
Statistics
Matches: 66, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
91 2 0.03
92 42 0.64
93 3 0.05
94 18 0.27
95 1 0.02
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.39
Consensus pattern (93 bp):
AATTGATAAAGATTAACATATAATTATAATAGATATAATCATATATTAAAGATTATCTTCTTATT
AAAAATAAAAACTTATCAAAAATCCTAA
Found at i:108795390 original size:18 final size:18
Alignment explanation
Indices: 108795369--108795639 Score: 129
Period size: 18 Copynumber: 14.6 Consensus size: 18
108795359 GAACAATTAT
108795369 TTATTCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAA
* *
108795387 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAGTCAA
* * ** *
108795405 TTATTCAATAATAACCAG
1 TTATTCAGTAACAGTCAA
**
108795423 TTATTCAGTATTGATCAATTGATCGG
1 TTATTCAGTA---A-C-A--G-TCAA
* *
108795449 TTATCCAGTAACAGCCAA
1 TTATTCAGTAACAGTCAA
* *
108795467 TTATTCAGTAA-AATTAGA
1 TTATTCAGTAACAGTCA-A
* *
108795485 -TATTCAGTAACAATTAA
1 TTATTCAGTAACAGTCAA
108795502 GTTATTCAGTAACAGTC-A
1 -TTATTCAGTAACAGTCAA
* * *
108795520 TTCATTCAGTGACAATCAG
1 TT-ATTCAGTAACAGTCAA
* *
108795539 TTATTCAATAA-TGATCAA
1 TTATTCAGTAACAG-TCAA
* * * *
108795557 TTATTCAGTAATATTTAG
1 TTATTCAGTAACAGTCAA
*
108795575 TTATTCAGTAATAGTCTAA
1 TTATTCAGTAACAGTC-AA
*
108795594 -TATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAA
* * *
108795611 ATATCCGGTAACAGTCAA
1 TTATTCAGTAACAGTCAA
108795629 TTATTCAGTAA
1 TTATTCAGTAA
108795640 TAATCAGTTA
Statistics
Matches: 191, Mismatches: 44, Indels: 36
0.70 0.16 0.13
Matches are distributed among these distances:
17 17 0.09
18 141 0.74
19 17 0.09
21 2 0.01
22 1 0.01
23 2 0.01
26 11 0.06
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAA
Found at i:108795490 original size:17 final size:19
Alignment explanation
Indices: 108795468--108795515 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
108795458 AACAGCCAAT
108795468 TATTCAGTAA-AATT-AGA
1 TATTCAGTAACAATTAAGA
*
108795485 TATTCAGTAACAATTAAGT
1 TATTCAGTAACAATTAAGA
108795504 TATTCAGTAACA
1 TATTCAGTAACA
108795516 GTCATTCATT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
17 10 0.36
18 4 0.14
19 14 0.50
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.35
Consensus pattern (19 bp):
TATTCAGTAACAATTAAGA
Found at i:108795823 original size:53 final size:53
Alignment explanation
Indices: 108795762--108795882 Score: 206
Period size: 53 Copynumber: 2.3 Consensus size: 53
108795752 CCGGAATAGT
* *
108795762 AACAGTAACAGTAGCAGTACGGTACACAGAGTACCTCATCGGAACAAATCTGA
1 AACAGTAACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATCCGA
* *
108795815 AACAGTAACAATAACATTACGGTACACAGAGTACCTCATCGGAACAAATCCGA
1 AACAGTAACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATCCGA
108795868 AACAGTAACAGTAAC
1 AACAGTAACAGTAAC
108795883 GGTAACAGTA
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
53 63 1.00
ACGTcount: A:0.43, C:0.23, G:0.17, T:0.17
Consensus pattern (53 bp):
AACAGTAACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATCCGA
Found at i:108795830 original size:59 final size:58
Alignment explanation
Indices: 108795759--108795893 Score: 190
Period size: 53 Copynumber: 2.4 Consensus size: 58
108795749 AAGCCGGAAT
*
108795759 AGTAACAGTAACAGTAGCAGTACGGTACACAGAGTACCTCATCGGAACAAATCTGAAAC
1 AGTAACAGTAACAGTA-CAGTACGGTACACAGAGTACCTCATCGGAACAAATCCGAAAC
*
108795818 AGTAACAATAACA-T----TACGGTACACAGAGTACCTCATCGGAACAAATCCGAAAC
1 AGTAACAGTAACAGTACAGTACGGTACACAGAGTACCTCATCGGAACAAATCCGAAAC
*
108795871 AGTAACAGTAACGGTAACAGTAC
1 AGTAACAGTAACAGT-ACAGTAC
108795894 AATATCCAAC
Statistics
Matches: 66, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
53 49 0.74
54 1 0.02
58 1 0.02
59 15 0.23
ACGTcount: A:0.42, C:0.22, G:0.19, T:0.17
Consensus pattern (58 bp):
AGTAACAGTAACAGTACAGTACGGTACACAGAGTACCTCATCGGAACAAATCCGAAAC
Found at i:108796093 original size:16 final size:16
Alignment explanation
Indices: 108796064--108796096 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
108796054 TAATTCATTT
108796064 TTCAATTTTCAATTAA
1 TTCAATTTTCAATTAA
108796080 TTCATATTTT-AATTAA
1 TTCA-ATTTTCAATTAA
108796096 T
1 T
108796097 CAACTATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.55
Consensus pattern (16 bp):
TTCAATTTTCAATTAA
Found at i:108797511 original size:16 final size:16
Alignment explanation
Indices: 108797490--108797528 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
108797480 AATTTTCCCC
* *
108797490 TTTTTCGTTCTTTCTT
1 TTTTTCCTTCCTTCTT
108797506 TTTTTCCTTCCTTCTT
1 TTTTTCCTTCCTTCTT
*
108797522 TCTTTCC
1 TTTTTCC
108797529 CCTGCTCTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.00, C:0.28, G:0.03, T:0.69
Consensus pattern (16 bp):
TTTTTCCTTCCTTCTT
Found at i:108797603 original size:2 final size:2
Alignment explanation
Indices: 108797596--108797630 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
108797586 CCTTCTACTT
108797596 TA TA TA TA TA TA TA TA 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
108797631 ATAACTTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:108799850 original size:40 final size:40
Alignment explanation
Indices: 108799795--108799976 Score: 296
Period size: 40 Copynumber: 4.6 Consensus size: 40
108799785 TATTCGGATG
*
108799795 ATATCCGGGCTAAGTCCCGAAGGCCTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
108799835 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
108799875 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
108799915 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
108799955 ATATCC-GGCTAATTCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
108799977 TACTTGGGTT
Statistics
Matches: 134, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 14 0.10
40 118 0.88
41 2 0.01
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:108807755 original size:40 final size:40
Alignment explanation
Indices: 108807700--108807879 Score: 278
Period size: 40 Copynumber: 4.6 Consensus size: 40
108807690 TATTCGGATG
*
108807700 ATATCCGGGCTAAGTCCCGAAGGCCTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
108807740 ATATCCGGGCTAAGT-CCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
108807779 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
108807819 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
108807859 ATATCC-GGCTAA-TTCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
108807880 TACTTGGGTT
Statistics
Matches: 131, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
38 7 0.05
39 43 0.33
40 79 0.60
41 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Done.