Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 722 of 770
Found at i:228417852 original size:29 final size:29
Alignment explanation
Indices: 228417820--228417894 Score: 89
Period size: 28 Copynumber: 2.6 Consensus size: 29
228417810 CTGGAAATAT
* *
228417820 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
* * * *
228417849 ATGGCACT-TGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
228417877 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
228417895 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
28 22 0.59
29 15 0.41
ACGTcount: A:0.23, C:0.20, G:0.35, T:0.23
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:228425652 original size:29 final size:29
Alignment explanation
Indices: 228425619--228425692 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
228425609 GTGACGAGAT
228425619 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
228425648 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
228425677 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
228425693 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:228425708 original size:29 final size:29
Alignment explanation
Indices: 228425676--228425751 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
228425666 CTGGAAATAT
* *
228425676 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
228425705 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
228425734 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
228425752 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:228425719 original size:58 final size:58
Alignment explanation
Indices: 228425619--228425751 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
228425609 GTGACGAGAT
* * * * * *
228425619 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
228425677 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
228425735 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
228425752 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:228430072 original size:41 final size:41
Alignment explanation
Indices: 228430027--228430144 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
228430017 TGAAAGATAA
228430027 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
228430068 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
228430098 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
228430139 ATGTAG
1 ATGTAG
228430145 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:228430083 original size:71 final size:71
Alignment explanation
Indices: 228429995--228430158 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
228429985 GAGATGTATC
228429995 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
228430060 AGGACA
66 AGGACA
228430066 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
228430131 AGGACA
66 AGGACA
228430137 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
228430159 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:228437648 original size:41 final size:41
Alignment explanation
Indices: 228437603--228437720 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
228437593 TGAAAGATAA
228437603 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
228437644 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
228437674 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
228437715 ATGTAG
1 ATGTAG
228437721 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:228437659 original size:71 final size:71
Alignment explanation
Indices: 228437571--228437734 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
228437561 GAGATGTATC
228437571 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
228437636 AGGACA
66 AGGACA
228437642 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
228437707 AGGACA
66 AGGACA
228437713 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
228437735 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:228440759 original size:40 final size:40
Alignment explanation
Indices: 228440674--228440824 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
228440664 AATTGAATGA
* * *
228440674 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
228440714 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
228440755 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
228440794 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
228440825 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:228440838 original size:40 final size:40
Alignment explanation
Indices: 228440711--228440840 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
228440701 ATGCTGGAAA
* * * *
228440711 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
228440751 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
228440791 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
228440831 TTATATCCGG
1 TTATATCCGG
228440841 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:228452543 original size:92 final size:92
Alignment explanation
Indices: 228452432--228452601 Score: 313
Period size: 92 Copynumber: 1.8 Consensus size: 92
228452422 GCCCCTAAGT
* *
228452432 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
228452497 CGAGTTCGGATGCCTAGTTACATTCAC
66 CGAGTTCGGATGCCTAGTTACATTCAC
*
228452524 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
228452589 CGAGTTCGGATGC
66 CGAGTTCGGATGC
228452602 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTCAC
Found at i:228452598 original size:46 final size:46
Alignment explanation
Indices: 228452427--228452598 Score: 217
Period size: 46 Copynumber: 3.7 Consensus size: 46
228452417 AACCCGCCCC
* * *
228452427 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
228452473 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CTAGTTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--TCCA
* *
228452519 TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 -TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
228452565 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
228452599 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 10, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 95 0.88
47 2 0.02
48 4 0.04
49 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:228452617 original size:46 final size:46
Alignment explanation
Indices: 228452429--228452617 Score: 151
Period size: 46 Copynumber: 4.1 Consensus size: 46
228452419 CCCGCCCCTA
* ** * *
228452429 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTC--GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCC-T
*
228452474 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATTC-
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCCT
* * * * *
228452522 A-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATCCT
228452567 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
228452613 AGTGA
1 AGTGA
228452618 CATGTCACTT
Statistics
Matches: 116, Mismatches: 13, Indels: 28
0.74 0.08 0.18
Matches are distributed among these distances:
44 9 0.08
45 2 0.02
46 95 0.82
47 1 0.01
48 4 0.03
49 1 0.01
50 4 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
Found at i:228453046 original size:30 final size:30
Alignment explanation
Indices: 228453012--228453071 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
228453002 ATTTAATACG
228453012 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
228453042 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
228453072 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:228459356 original size:37 final size:36
Alignment explanation
Indices: 228459306--228459392 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
228459296 TACGAAGTCT
228459306 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
228459342 GTACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
228459379 TCACCCGGAACATA
1 T-ACCCGG-ACATA
228459393 TTTCCAAGTT
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 42 0.88
38 5 0.10
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.21
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:228460955 original size:28 final size:29
Alignment explanation
Indices: 228460915--228461013 Score: 105
Period size: 28 Copynumber: 3.5 Consensus size: 29
228460905 GTAATAAGCC
*
228460915 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
228460943 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * * *
228460971 TGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
228461000 CGCACACTTAGTGC
1 CGCACACTTAGTGC
228461014 CAATTTGTGA
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
27 2 0.03
28 36 0.61
29 18 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:228468651 original size:28 final size:29
Alignment explanation
Indices: 228468611--228468709 Score: 105
Period size: 28 Copynumber: 3.5 Consensus size: 29
228468601 GTAATAAGCC
*
228468611 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
228468639 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * * *
228468667 TGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
228468696 CGCACACTTAGTGC
1 CGCACACTTAGTGC
228468710 CAATTTGTGA
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
27 2 0.03
28 36 0.61
29 18 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:228471321 original size:29 final size:29
Alignment explanation
Indices: 228471288--228471504 Score: 213
Period size: 29 Copynumber: 7.5 Consensus size: 29
228471278 TGACGAGATC
228471288 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
228471317 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
* *
228471346 GGCACTAAGTGTGCTTGCTGGAAATATAA
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
* *
228471375 GGCACTAAGTGTGCATGCTGGAAAAATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
* * ** * *
228471404 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
* * ***
228471433 GGCACT-GGTGTGCGAGCTCGG-AGGGTAT
1 GGCACTAAGTGTGCGTGCT-GGAAATATAT
** * * * **
228471461 GGCACTGTGTGTGCGGGCTTGAATTACGT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
228471490 GGCACTAAGTGTGCG
1 GGCACTAAGTGTGCG
228471505 AAATCGAGTA
Statistics
Matches: 159, Mismatches: 26, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
28 20 0.13
29 139 0.87
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.25
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAATATAT
Found at i:228476169 original size:40 final size:40
Alignment explanation
Indices: 228476114--228476335 Score: 331
Period size: 40 Copynumber: 5.6 Consensus size: 40
228476104 TATTCGAATG
* *
228476114 ATATCCGGGTTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
*
228476154 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
228476194 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
* * *
228476234 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
* * *
228476274 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGATT
*
228476314 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
228476336 TACTTGGGTT
Statistics
Matches: 168, Mismatches: 13, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 14 0.08
40 152 0.90
41 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
Found at i:228484658 original size:40 final size:40
Alignment explanation
Indices: 228484603--228484859 Score: 339
Period size: 40 Copynumber: 6.6 Consensus size: 40
228484593 TATTCGAATG
* *
228484603 ATATCCGGGTTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
*
228484643 ATATCCGGGCTAAGTCCC-AAGGCATTTGTGCTATTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
*
228484682 ATATCC-GGCTAAGTCCCGAAGGCA-TT-T-CTATTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
*
228484718 ATATCCGGGCTAAGTCCCGAAGGTATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
* * *
228484758 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
* * * *
228484798 ATATCCGGGCTAAGACCCGAAGGCATTTGCGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGATT
*
228484838 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
228484860 TACTTGGGTT
Statistics
Matches: 195, Mismatches: 16, Indels: 13
0.87 0.07 0.06
Matches are distributed among these distances:
36 15 0.08
37 18 0.09
38 15 0.08
39 46 0.24
40 99 0.51
41 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
Found at i:228491615 original size:29 final size:29
Alignment explanation
Indices: 228491587--228491747 Score: 214
Period size: 29 Copynumber: 5.6 Consensus size: 29
228491577 CCTTCGAGCT
** * * *
228491587 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* * * *
228491616 TGCACACATAGTGTCATATTTTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
228491645 TGCACACTTAGTGCCTTATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
228491674 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
228491703 CACACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
228491732 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
228491748 ATCTCCTCAC
Statistics
Matches: 118, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 118 1.00
ACGTcount: A:0.25, C:0.31, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:228491658 original size:87 final size:87
Alignment explanation
Indices: 228491558--228491747 Score: 209
Period size: 87 Copynumber: 2.2 Consensus size: 87
228491548 AATTTAAGCC
** * * * * * ***
228491558 CGCACACACAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCTTGCACAC
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCACACACAC
* *
228491623 ATAGTGTCATATTTTTCCAGCA
66 ATAGTGCCATATATTTCCAGCA
* * * * **
228491645 TGCACACTTAGTGCCTTATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCACACACAC
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCACACACAC
*
228491710 TTAGTGCCATATATTTCCAGCA
66 ATAGTGCCATATATTTCCAGCA
228491732 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
228491748 ATCTCCTCAC
Statistics
Matches: 82, Mismatches: 21, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
87 82 1.00
ACGTcount: A:0.25, C:0.33, G:0.15, T:0.27
Consensus pattern (87 bp):
CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCACACACAC
ATAGTGCCATATATTTCCAGCA
Found at i:228497012 original size:24 final size:24
Alignment explanation
Indices: 228496961--228497059 Score: 130
Period size: 23 Copynumber: 4.2 Consensus size: 24
228496951 NNNNNNNNNN
*
228496961 GTTATCAAAAGGGCTTAT-ACCCA
1 GTTATCAAAAGGGCTTATGCCCCA
*
228496984 GTTATCAAAAGGGCTTACGCCCCA
1 GTTATCAAAAGGGCTTATGCCCCA
*
228497008 GTTAT-TAAAGGGCTTATGCCCCA
1 GTTATCAAAAGGGCTTATGCCCCA
* * *
228497031 GTTATAAAAAGGGTTTTTGCCCCA
1 GTTATCAAAAGGGCTTATGCCCCA
228497055 GTTAT
1 GTTAT
228497060 TATGTAACAC
Statistics
Matches: 67, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
23 38 0.57
24 29 0.43
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.29
Consensus pattern (24 bp):
GTTATCAAAAGGGCTTATGCCCCA
Found at i:228497032 original size:47 final size:46
Alignment explanation
Indices: 228496968--228497061 Score: 134
Period size: 47 Copynumber: 2.0 Consensus size: 46
228496958 NNNGTTATCA
*
228496968 AAAGGGCTTATACCCAGTTATCAAAAGGGCTTACGCCCCAGTTATT
1 AAAGGGCTTATACCCAGTTATAAAAAGGGCTTACGCCCCAGTTATT
* * **
228497014 AAAGGGCTTATGCCCCAGTTATAAAAAGGGTTTTTGCCCCAGTTATT
1 AAAGGGCTTAT-ACCCAGTTATAAAAAGGGCTTACGCCCCAGTTATT
228497061 A
1 A
228497062 TGTAACACCC
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
46 11 0.26
47 31 0.74
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (46 bp):
AAAGGGCTTATACCCAGTTATAAAAAGGGCTTACGCCCCAGTTATT
Found at i:228498505 original size:40 final size:39
Alignment explanation
Indices: 228498461--228498589 Score: 111
Period size: 40 Copynumber: 3.3 Consensus size: 39
228498451 GACTCGCTCA
*
228498461 AATGCCTTCGGGAC-GAAGCCC-GGTTATAGCGACTTGCAC
1 AATGCCTTCGGGACTGAA-CCCGGGTT-TAGCAACTTGCAC
* *
228498500 GAATGCCTTCGGGACTTAACCCGGGTTTAGTAACTTGCAC
1 -AATGCCTTCGGGACTGAACCCGGGTTTAGCAACTTGCAC
* * * * ** *
228498540 AAAGCCTTCGGGA-TTAGCCCGGATTTATTAACTCGCAC
1 AATGCCTTCGGGACTGAACCCGGGTTTAGCAACTTGCAC
228498578 GAATGCCTTCGG
1 -AATGCCTTCGG
228498590 ATCCTAGTCC
Statistics
Matches: 77, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
38 21 0.27
39 22 0.29
40 28 0.36
41 6 0.08
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTGAACCCGGGTTTAGCAACTTGCAC
Found at i:228498589 original size:78 final size:80
Alignment explanation
Indices: 228498496--228498642 Score: 210
Period size: 78 Copynumber: 1.9 Consensus size: 80
228498486 ATAGCGACTT
* * *
228498496 GCACGAATGCCTTCGGGA-CTTAACCCGGGTTTAGTAACTT-GCACAAAGCCTTCGGGA-TTAGC
1 GCACGAATGCCTTC-GGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGC
228498558 CCGGATTTATTAACTC
65 CCGGATTTATTAACTC
** *
228498574 GCACGAATGCCTTCGGATCCTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAGCC
1 GCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCC
228498639 CGGA
66 CGGA
228498643 CATCATTCGA
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
77 3 0.05
78 30 0.50
79 17 0.28
80 10 0.17
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (80 bp):
GCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCC
CGGATTTATTAACTC
Found at i:228498626 original size:40 final size:37
Alignment explanation
Indices: 228498477--228498642 Score: 125
Period size: 40 Copynumber: 4.2 Consensus size: 37
228498467 TTCGGGACGA
* ** *
228498477 AGCCCGGTTATAGCGACTTGCACGAATGCCTTCGGGACTT
1 AGCCCGGATATAGTAACTTGCAC-AAAGCCTTC-GGA-TT
* * *
228498517 AACCCGGGTTTAGTAACTTGCACAAAGCCTTCGGGATT
1 AGCCCGGATATAGTAACTTGCACAAAGCCTTC-GGATT
* * * *
228498555 AGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCT
1 AGCCCGGATATAGTAACTTGCAC-AAAGCCTTCGGAT--T
* *
228498595 AGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTT
1 AGCCCGGATATAGTAACTT-GCACAAAGCCTTC-GGA-TT
228498635 AGCCCGGA
1 AGCCCGGA
228498643 CATCATTCGA
Statistics
Matches: 102, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
38 25 0.25
39 20 0.20
40 49 0.48
41 7 0.07
42 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (37 bp):
AGCCCGGATATAGTAACTTGCACAAAGCCTTCGGATT
Found at i:228508032 original size:30 final size:30
Alignment explanation
Indices: 228507996--228508126 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
228507986 GACAAGATTG
* * * * *
228507996 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
228508026 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
228508054 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
228508084 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
228508113 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
228508127 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:228508087 original size:58 final size:58
Alignment explanation
Indices: 228507996--228508126 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
228507986 GACAAGATTG
* * * * * *
228507996 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
228508054 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
228508113 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
228508127 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:228511479 original size:17 final size:17
Alignment explanation
Indices: 228511457--228511492 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
228511447 GCCCGTATCG
228511457 TATGGCATTAACGGAAT
1 TATGGCATTAACGGAAT
228511474 TATGGCATTAACGGAAT
1 TATGGCATTAACGGAAT
228511491 TA
1 TA
228511493 AAGGAATTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.31
Consensus pattern (17 bp):
TATGGCATTAACGGAAT
Found at i:228515805 original size:30 final size:30
Alignment explanation
Indices: 228515769--228515899 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
228515759 GACAAGATTG
* * * * *
228515769 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
228515799 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
228515827 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
228515857 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
228515886 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
228515900 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:228515860 original size:58 final size:58
Alignment explanation
Indices: 228515769--228515899 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
228515759 GACAAGATTG
* * * * * *
228515769 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
228515827 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
228515886 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
228515900 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:228517527 original size:40 final size:37
Alignment explanation
Indices: 228517380--228517527 Score: 129
Period size: 40 Copynumber: 3.8 Consensus size: 37
228517370 GGTTATAGCG
* *
228517380 ACTTGCACGAATGCCTTCGGACTTAACCCGG-TTAGTA
1 ACTTGCAC-AAAGCCTTCGGACTTAGCCCGGATTAGTA
*
228517417 ACTTGCACAAAGCCTTCGGGA-TTAGCCCGGATTTATTA
1 ACTTGCACAAAGCCTTC-GGACTTAGCCCGGA-TTAGTA
* * * * * *
228517455 ACTCGTACGAATGCCTTCGGATCCTAGTCCGGATATAGTC
1 ACTTGCAC-AAAGCCTTCGGA-CTTAGCCCGGAT-TAGTA
228517495 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 ACTT-GCACAAAGCCTTC-GGACTTAGCCCGGA
228517528 CATCATTCGA
Statistics
Matches: 87, Mismatches: 15, Indels: 15
0.74 0.13 0.13
Matches are distributed among these distances:
36 16 0.18
37 11 0.13
38 14 0.16
39 9 0.10
40 31 0.36
41 6 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (37 bp):
ACTTGCACAAAGCCTTCGGACTTAGCCCGGATTAGTA
Found at i:228521603 original size:40 final size:40
Alignment explanation
Indices: 228521554--228521761 Score: 258
Period size: 40 Copynumber: 5.2 Consensus size: 40
228521544 TCTTCGGAAT
* * *
228521554 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* * ** * *
228521593 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* *
228521633 TTAGCCCGGATATAA-CAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAATC-ACTAGCACAAATGCCTTCGGGTC
* *
228521673 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* *
228521713 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
228521753 TTAGCCCGG
1 TTAGCCCGG
228521762 GTATCATTCA
Statistics
Matches: 146, Mismatches: 20, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
39 3 0.02
40 142 0.97
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
Found at i:228528316 original size:13 final size:13
Alignment explanation
Indices: 228528295--228528330 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
228528285 TAACACCCCG
*
228528295 TACCCGAGTCCGT
1 TACCGGAGTCCGT
228528308 TACCGGAGTCCGT
1 TACCGGAGTCCGT
228528321 TACCGGAGTC
1 TACCGGAGTC
228528331 GAACACAAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.17, C:0.33, G:0.28, T:0.22
Consensus pattern (13 bp):
TACCGGAGTCCGT
Found at i:228529717 original size:40 final size:40
Alignment explanation
Indices: 228529668--228529873 Score: 240
Period size: 40 Copynumber: 5.2 Consensus size: 40
228529658 TCTTCGGAAT
* * *
228529668 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* * ** * *
228529707 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* *
228529747 TTAGCCCGGATATAA-CAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAATC-ACTAGCACAAATGCCTTCGGGTC
* *
228529787 TTAGCCC-GATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* *
228529826 TTAGCCCGGATATAATCACTAGCATAAATGCCTT-GGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
228529865 TTAGCCCGG
1 TTAGCCCGG
228529874 GTATCATTCA
Statistics
Matches: 143, Mismatches: 20, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
39 50 0.35
40 93 0.65
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
Found at i:228529837 original size:79 final size:77
Alignment explanation
Indices: 228529659--228529872 Score: 225
Period size: 79 Copynumber: 2.7 Consensus size: 77
228529649 AACCGAGCTT
* * * * * **
228529659 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGT
1 CTTCGGGACTTAGCCCGGATATAA-CACTAGCACAA-TGCCTTCGGGTCTTAGCCC-GATATAAT
*
228529723 AACTTGCACAAATGC
63 AACTAGCACAAATGC
* * *
228529738 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCGATATAATC
1 CTTCGGGACTTAGCCCGGATATAAC-ACTAGCAC-AATGCCTTCGGGTCTTAGCCCGATATAATA
*
228529803 ACTAGCATAAATGC
64 ACTAGCACAAATGC
* *
228529817 CTTCGGGACTTAGCCCGGATATAATCACTAGCATAAATGCCTT-GGGACTTAGCCCG
1 CTTCGGGACTTAGCCCGGATATAA-CACTAGCA-CAATGCCTTCGGGTCTTAGCCCG
228529873 GGTATCATTC
Statistics
Matches: 114, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
78 12 0.11
79 65 0.57
80 35 0.31
81 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.26
Consensus pattern (77 bp):
CTTCGGGACTTAGCCCGGATATAACACTAGCACAATGCCTTCGGGTCTTAGCCCGATATAATAAC
TAGCACAAATGC
Found at i:228532021 original size:29 final size:29
Alignment explanation
Indices: 228531987--228532145 Score: 212
Period size: 29 Copynumber: 5.5 Consensus size: 29
228531977 CCCTCGAGCT
** * * *
228531987 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* * *
228532016 TGCACACATAGTGTCATAT-TTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
* * *
228532044 TGCACACTTAGTGCCTTATATTTCTAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
228532073 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
228532102 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
228532131 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
228532146 GATCTCGTCA
Statistics
Matches: 116, Mismatches: 13, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
28 24 0.21
29 92 0.79
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.30
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:228532079 original size:86 final size:87
Alignment explanation
Indices: 228531987--228532145 Score: 230
Period size: 86 Copynumber: 1.8 Consensus size: 87
228531977 CCCTCGAGCT
* * ** * *
228531987 CGCACACCCAGTGCCGTATTTTTCCAGCTTGCACACATAGTGTCATAT-TTTCCAGCATGCACAC
1 CGCACACCCAGTGCCATATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCACGCACAC
228532051 TTAGTGCCTTATATTTCTAGCA
66 TTAGTGCCTTATATTTCTAGCA
** *
228532073 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCACGCACAC
1 CGCACACCCAGTGCCATATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCACGCACAC
228532138 TTAGTGCC
66 TTAGTGCC
228532146 GATCTCGTCA
Statistics
Matches: 63, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
86 40 0.63
87 23 0.37
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.30
Consensus pattern (87 bp):
CGCACACCCAGTGCCATATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCACGCACAC
TTAGTGCCTTATATTTCTAGCA
Found at i:228532115 original size:58 final size:57
Alignment explanation
Indices: 228531930--228532145 Score: 211
Period size: 57 Copynumber: 3.8 Consensus size: 57
228531920 TACTCGATTT
* * ** *** * *
228531930 CGCACACTTAGTGCCACGTA-ATTT-AAGCCCGCACACACAGTGCCATACCCTCGAGCT
1 CGCACACTTAGTGCCA--TATATTTCCAGCACGCACACTTAGTGCCATATTTTCCAGCA
** * * ** * *
228531987 CGCACACCCAGTGCCGTATTTTTCCAGCTTGCACACATAGTGTCATATTTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATATTTTCCAGCA
* * *
228532044 TGCACACTTAGTGCCTTATATTTCTAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATAT-TTTCCAGCA
228532102 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCC
1 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCC
228532146 GATCTCGTCA
Statistics
Matches: 129, Mismatches: 27, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
55 2 0.02
56 3 0.02
57 74 0.57
58 50 0.39
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (57 bp):
CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATATTTTCCAGCA
Found at i:228539901 original size:29 final size:29
Alignment explanation
Indices: 228539873--228540030 Score: 203
Period size: 29 Copynumber: 5.5 Consensus size: 29
228539863 CCTCCGAGCT
** * * *
228539873 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* * *
228539902 TGCACACATAGTGTC--ATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
* * *
228539929 TGCACACTTAGTGCCTTATATTTCTAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
228539958 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
228539987 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
228540016 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
228540031 GATCTCGTCA
Statistics
Matches: 115, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
27 23 0.20
29 92 0.80
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:228539962 original size:85 final size:86
Alignment explanation
Indices: 228539873--228540030 Score: 219
Period size: 85 Copynumber: 1.8 Consensus size: 86
228539863 CCTCCGAGCT
* * ** * *
228539873 CGCACACCCAGTGCCGTATTTTTCCAGCTTGCACACATAGTGTC-ATATTTCCAGCATGCACACT
1 CGCACACCCAGTGCCATATATTTCCAGCACGCACACATAGTGCCAATATTTCCAGCACGCACACT
228539937 TAGTGCCTTATATTTCTAGCA
66 TAGTGCCTTATATTTCTAGCA
** *
228539958 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCACGCACAC
1 CGCACACCCAGTGCCATATATTTCCAGCACGCACACATAGTGCCA-ATATTTCCAGCACGCACAC
228540023 TTAGTGCC
65 TTAGTGCC
228540031 GATCTCGTCA
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
85 36 0.58
87 26 0.42
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.29
Consensus pattern (86 bp):
CGCACACCCAGTGCCATATATTTCCAGCACGCACACATAGTGCCAATATTTCCAGCACGCACACT
TAGTGCCTTATATTTCTAGCA
Found at i:228543200 original size:28 final size:25
Alignment explanation
Indices: 228543168--228543223 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 25
228543158 ATTATACAAC
228543168 AATAATATCAAAAATAGCATATAAAAGA
1 AATAAT-T-AAAAATAGCATATAAAA-A
*
228543196 AATAATTAAACATAGCATATAAAAA
1 AATAATTAAAAATAGCATATAAAAA
228543221 AAT
1 AAT
228543224 GAAACTATGC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 4 0.15
26 16 0.59
27 1 0.04
28 6 0.22
ACGTcount: A:0.64, C:0.07, G:0.05, T:0.23
Consensus pattern (25 bp):
AATAATTAAAAATAGCATATAAAAA
Found at i:228543735 original size:22 final size:21
Alignment explanation
Indices: 228543710--228543750 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
228543700 TTAAATCTCC
228543710 AAGATTACAAGATCATATCTTA
1 AAGATTAC-AGATCATATCTTA
* *
228543732 AAGATTGCATATCATATCT
1 AAGATTACAGATCATATCT
228543751 AAGATTGTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.34
Consensus pattern (21 bp):
AAGATTACAGATCATATCTTA
Found at i:228543756 original size:19 final size:19
Alignment explanation
Indices: 228543721--228543799 Score: 126
Period size: 19 Copynumber: 4.2 Consensus size: 19
228543711 AGATTACAAG
228543721 ATCATATCTTAAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
228543742 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
228543759 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
228543778 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
228543797 ATC
1 ATC
228543800 CTTAAAGATT
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.30
19 30 0.54
20 1 0.02
21 8 0.14
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:228543776 original size:36 final size:38
Alignment explanation
Indices: 228543721--228543809 Score: 134
Period size: 36 Copynumber: 2.4 Consensus size: 38
228543711 AGATTACAAG
228543721 ATCATATCTTAAAGATTGCATATCATATCTAAGATTGT
1 ATCATATCTTAAAGATTGCATATCATATCTAAGATTGT
228543759 ATCATATC-T-AAGATTGCATATCATATCTAAGATTG-
1 ATCATATCTTAAAGATTGCATATCATATCTAAGATTGT
228543794 --CATATCCTTAAAGATT
1 ATCATAT-CTTAAAGATT
228543810 ATATTTCCAT
Statistics
Matches: 48, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
33 5 0.10
34 1 0.02
35 1 0.02
36 32 0.67
37 1 0.02
38 8 0.17
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (38 bp):
ATCATATCTTAAAGATTGCATATCATATCTAAGATTGT
Found at i:228544543 original size:206 final size:206
Alignment explanation
Indices: 228544182--228544975 Score: 1219
Period size: 206 Copynumber: 3.9 Consensus size: 206
228544172 AATCTTTTAT
* *
228544182 CTTCGATCTGTTTTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
* * * * * * *
228544247 GCGAAAACCAAATCAACTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTT
* * * * ** * *
228544312 CGATCTGCTTCAGTCTAATCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTTGAATATG
131 GGATCTGCTTCAGTATAAACATATGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATG
228544377 GAGACGCCAAA
196 GAGACGCCAAA
* * *
228544388 CTTCGATTTGTTCCCTGACAATACAGATATGCCAAATCATCTTAGATTTGCTTCATCGTAAGTAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
* * *
228544453 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGTACAAGAATGCCAAATCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTT
* ** * * *
228544518 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTGTCTTCTCTCTGTCAAATATG
131 GGATCTGCTTCAGTATAAACATATGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATG
228544583 GAGACGCCAAA
196 GAGACGCCAAA
* * *
228544594 CTTTGATTTGTTCTCTGAAAATACAGAGATACCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
* *
228544659 GTGAAAGCCAAATCAGCTATGTCTTCAATTTATTCCTTGTAAGCACAAGGATGCCAAATCACCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTT
* * **
228544724 AGATCTGCTTTAGTATAAACATATGAAGGCCAGATCAACTATGTGTCTGCTCTCCGTCGAATATG
131 GGATCTGCTTCAGTATAAACATATGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATG
228544789 GAGACGCCAAA
196 GAGACGCCAAA
228544800 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
228544865 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTT
* * *
228544930 GGCTCTACTTCAGTATAAACATATGAAGGCCAGATTTGCTATGTGT
131 GGATCTGCTTCAGTATAAACATATGAAGGCCAGATCTGCTATGTGT
228544976 GTAATATCCC
Statistics
Matches: 534, Mismatches: 54, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
206 534 1.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (206 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTT
GGATCTGCTTCAGTATAAACATATGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATG
GAGACGCCAAA
Found at i:228546558 original size:49 final size:49
Alignment explanation
Indices: 228546495--228546724 Score: 268
Period size: 49 Copynumber: 4.7 Consensus size: 49
228546485 TGAGGTCGCA
* *
228546495 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACC-GAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGAAAA-T-TGGTCACG
* * * ***
228546545 TGTGTA-TACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGAAAATT-GGTCACG
* *
228546594 TGTGTAGTACTAAGTGCAGGCTACTAC-TGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGAAAATTGGTCACG
* * * *
228546642 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGAAAATTGGTCACG
* *
228546691 TGTGTAGTACTATGTGCAGGCTACTATGCGTACC
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACC
228546725 AGATAGCTTT
Statistics
Matches: 160, Mismatches: 16, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
48 35 0.22
49 97 0.61
50 28 0.17
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGAAAATTGGTCACG
Found at i:228546711 original size:97 final size:98
Alignment explanation
Indices: 228546487--228546724 Score: 322
Period size: 97 Copynumber: 2.4 Consensus size: 98
228546477 ATCTATTGTG
228546487 AGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCGAAAACTGTGATCACGTGTGTAT
1 AGGTCGCATGTGTAGTACTAAGTGCAGGCTACTAT-CGTACCGAAAACTGTGATCACGTGTGTAT
* **
228546552 ACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
65 ACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
228546586 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTA-CTGTACCGGATAA-T-TGGTCACGTGTGTA
1 AGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATC-GTACC-GAAAACTGTGATCACGTGTGTA
*
228546648 GTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
64 -TACTAAGTGCAGGCTACTACGTGTACCAGATAATT
*
228546684 -GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACC
1 AGGTCGCATGTGTAGTACTAAGTGCAGGCTACTAT-CGTACC
228546725 AGATAGCTTT
Statistics
Matches: 123, Mismatches: 11, Indels: 11
0.85 0.08 0.08
Matches are distributed among these distances:
97 44 0.36
98 42 0.34
99 37 0.30
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.29
Consensus pattern (98 bp):
AGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATCGTACCGAAAACTGTGATCACGTGTGTATA
CTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:228549722 original size:15 final size:15
Alignment explanation
Indices: 228549688--228549725 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
228549678 TATCGTATCT
228549688 TGGGTTT-TTTACTC
1 TGGGTTTCTTTACTC
* *
228549702 TAGGTTTCTTTATTC
1 TGGGTTTCTTTACTC
228549717 TGGGTTTCT
1 TGGGTTTCT
228549726 CTATCTTGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.08, C:0.13, G:0.21, T:0.58
Consensus pattern (15 bp):
TGGGTTTCTTTACTC
Found at i:228551942 original size:40 final size:40
Alignment explanation
Indices: 228551868--228552008 Score: 158
Period size: 40 Copynumber: 3.5 Consensus size: 40
228551858 CCGCACCAAG
* * * * * *
228551868 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
228551908 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
228551948 GCCTTCGGGTCTT-GCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
228551987 GCCTTCGGGTCTTAACCCGGAT
1 GCCTTCGGGTCTTAGCCCGGAT
228552009 GTAATTTTCA
Statistics
Matches: 85, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 33 0.39
40 52 0.61
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:228560048 original size:40 final size:40
Alignment explanation
Indices: 228559974--228560114 Score: 158
Period size: 40 Copynumber: 3.5 Consensus size: 40
228559964 CCGCACCAAG
* * * * * *
228559974 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
228560014 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
228560054 GCCTTCGGGTCTT-GCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
228560093 GCCTTCGGGTCTTAACCCGGAT
1 GCCTTCGGGTCTTAGCCCGGAT
228560115 GTAATTTTCA
Statistics
Matches: 85, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 33 0.39
40 52 0.61
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:228563481 original size:49 final size:49
Alignment explanation
Indices: 228563315--228563552 Score: 316
Period size: 49 Copynumber: 4.8 Consensus size: 49
228563305 TAAGGTCGCA
* * * * *
228563315 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGGTCACG
* **
228563366 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACG
228563416 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
* * *
228563465 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
* *
228563514 TGTGTAGTACTATA-TGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTA-AGTGCAGGCTACTACGTGTACCAGATA
228563553 GCTTTGGCTA
Statistics
Matches: 168, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
49 88 0.52
50 47 0.28
51 33 0.20
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
Found at i:228563495 original size:99 final size:100
Alignment explanation
Indices: 228563308--228563552 Score: 343
Period size: 99 Copynumber: 2.5 Consensus size: 100
228563298 TCTATTGTAA
* * *
228563308 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAG
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTGTGATCACGTGTGTAG
* **
228563373 TACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
66 TACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
228563408 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGGTCACGTGTGTA
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTGTGATCACGTGTGTA
*
228563471 GTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
65 GTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
*
228563507 GGTCGCATGTGTAGTACTATA-TGCAGGCTACTATGCGTACCAGATA
1 GGTCACATGTGTAGTACTA-AGTGCAGGCTACTATGCGTACCAGATA
228563553 GCTTTGGCTA
Statistics
Matches: 128, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
98 40 0.31
99 46 0.36
100 1 0.01
101 41 0.32
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (100 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTGTGATCACGTGTGTAG
TACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:228564554 original size:46 final size:44
Alignment explanation
Indices: 228564495--228564588 Score: 100
Period size: 44 Copynumber: 2.1 Consensus size: 44
228564485 AACCGTGAAA
* * * * *
228564495 GCCAAATTAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGAT
1 GCCAAATTAGCTA--TCTTCAACTTGTTCCCTATAAACACAAGGAT
*
228564541 GCCAAATCT-GCTATCTTCAACTTGTTCCCTATAAACACAGGGAT
1 GCCAAAT-TAGCTATCTTCAACTTGTTCCCTATAAACACAAGGAT
228564585 GCCA
1 GCCA
228564589 TGCTGAANNN
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
44 29 0.71
46 11 0.27
47 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (44 bp):
GCCAAATTAGCTATCTTCAACTTGTTCCCTATAAACACAAGGAT
Found at i:228567356 original size:39 final size:40
Alignment explanation
Indices: 228567265--228567442 Score: 197
Period size: 40 Copynumber: 4.5 Consensus size: 40
228567255 TCGAATGATG
* * * *
228567265 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
228567305 TCCGGACTAAGAT-CCGAAGGCA-TTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
228567344 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
** *
228567384 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
228567425 --CGGGCTATGTCCCGAAGG
1 TCCGGACTAAGTCCCGAAGG
228567443 TATTGAACGA
Statistics
Matches: 124, Mismatches: 9, Indels: 11
0.86 0.06 0.08
Matches are distributed among these distances:
39 47 0.38
40 74 0.60
41 3 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:228567401 original size:79 final size:80
Alignment explanation
Indices: 228567265--228567442 Score: 197
Period size: 79 Copynumber: 2.2 Consensus size: 80
228567255 TCGAATGATG
* *
228567265 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCA-TT
1 TCCGGACTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
*
228567329 GTGCGAGTTACTAAA
66 GTGCGAGCTACTAAA
* * **
228567344 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 TCCGGACTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCA
228567406 TTTGTGCGAGCTACTATAA
63 TTTGTGCGAGCTACTA-AA
* *
228567425 --CGGGCTATGTCCCGAAGG
1 TCCGGACTAAGTCCCGAAGG
228567443 TATTGAACGA
Statistics
Matches: 84, Mismatches: 9, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
78 2 0.02
79 58 0.69
80 22 0.26
81 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGACTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGCTACTAAA
Found at i:228574937 original size:40 final size:40
Alignment explanation
Indices: 228574882--228575091 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
228574872 AACATTGGAA
228574882 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
228574922 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
228574962 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
228575002 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
228575041 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
228575082 CTATATCCGG
1 ATATATCCGG
228575092 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:228583073 original size:40 final size:40
Alignment explanation
Indices: 228583018--228583227 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
228583008 AACATTGGAA
228583018 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
228583058 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
228583098 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
228583138 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
228583177 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
228583218 CTATATCCGG
1 ATATATCCGG
228583228 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:228590135 original size:40 final size:40
Alignment explanation
Indices: 228590076--228590283 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
228590066 CAATTGAATG
* * * *
228590076 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
228590116 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
228590156 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
228590196 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
228590236 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
228590276 ATATCCGG
1 ATATCCGG
228590284 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:228590214 original size:80 final size:80
Alignment explanation
Indices: 228590077--228590283 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
228590067 AATTGAATGA
* * ** * * *
228590077 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
*
228590142 TTGTGCTAGT-G-AC
66 TTGTGCAAGTCGTAC
* * *
228590155 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
* *
228590220 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* *
228590237 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
228590284 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
80 105 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:228598148 original size:40 final size:40
Alignment explanation
Indices: 228598089--228598296 Score: 227
Period size: 40 Copynumber: 5.2 Consensus size: 40
228598079 CAATTGAATG
* * * *
228598089 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
228598129 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
228598169 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
228598209 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
228598249 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
228598289 ATATCCGG
1 ATATCCGG
228598297 TTGTATTCCG
Statistics
Matches: 144, Mismatches: 24, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 144 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:228598227 original size:80 final size:80
Alignment explanation
Indices: 228598091--228598296 Score: 252
Period size: 80 Copynumber: 2.6 Consensus size: 80
228598081 ATTGAATGAT
* * ** * * *
228598091 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAAT
*
228598156 TGTGCTAGT-GACTAC
66 TGTGCAAGTCG-CTAC
* * * *
228598171 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAAT
* *
228598236 TGTGCAAGTCGTTAT
66 TGTGCAAGTCGCTAC
* *
228598251 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
228598297 TTGTATTCCG
Statistics
Matches: 108, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
80 107 0.99
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAAT
TGTGCAAGTCGCTAC
Found at i:228600335 original size:29 final size:28
Alignment explanation
Indices: 228600303--228600405 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
228600293 GTGACGAGAT
* *
228600303 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
228600332 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
228600361 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
228600390 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
228600406 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:228608129 original size:29 final size:28
Alignment explanation
Indices: 228608097--228608199 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
228608087 GTGACGAGAT
* *
228608097 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
228608126 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
228608155 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
228608184 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
228608200 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:228609891 original size:17 final size:17
Alignment explanation
Indices: 228609871--228609903 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
228609861 CTCAAGTTAA
228609871 TAAATTAAT-TTCTCAAT
1 TAAA-TAATCTTCTCAAT
228609888 TAAATAATCTTCTCAA
1 TAAATAATCTTCTCAA
228609904 CCTAATTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.42
Consensus pattern (17 bp):
TAAATAATCTTCTCAAT
Found at i:228617846 original size:40 final size:39
Alignment explanation
Indices: 228617681--228617864 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
228617671 AAATTGAATG
* * *
228617681 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
228617721 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
228617761 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
228617801 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
228617840 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
228617865 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:228617889 original size:80 final size:81
Alignment explanation
Indices: 228617721--228617909 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
228617711 GCTGGAAATT
* * * *
228617721 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
228617786 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
228617802 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
228617865 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
228617881 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
228617910 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:228621096 original size:79 final size:81
Alignment explanation
Indices: 228620962--228621179 Score: 218
Period size: 79 Copynumber: 2.8 Consensus size: 81
228620952 GAATCACGTA
*** * **
228620962 CCTTCGGAAT-TTAA-CCGGATATAACGACTT-GCTCAAATGCCTTCGGGACAAAGCCCGG-TTA
1 CCTTCGG-ATCTTAACCCGGATATAGTAACTTAGCACAAATGCCTTCGGGACTTAGCCCGGATT-
* *
228621023 TAGTAACTCGCACGAATG
64 TAGTAACTCGCACAAACG
* * *
228621041 CCTTCGGGA-CTTAACCCGGGTTTAGTAAC-TCGCACAAATGCCTTCGGG-CTTAGCCCGGATTT
1 CCTTC-GGATCTTAACCCGGATATAGTAACTTAGCACAAATGCCTTCGGGACTTAGCCCGGATTT
*
228621103 ATTAACTCGCACAAACG
65 AGTAACTCGCACAAACG
** *
228621120 CCTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 CCTTCGGATCTTAACCCGGATATAGTAACTTAGCACAAATGCCTTCGGGACTTAGCCCGGA
228621180 CATCATTCAA
Statistics
Matches: 114, Mismatches: 17, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
78 3 0.03
79 63 0.55
80 48 0.42
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (81 bp):
CCTTCGGATCTTAACCCGGATATAGTAACTTAGCACAAATGCCTTCGGGACTTAGCCCGGATTTA
GTAACTCGCACAAACG
Found at i:228621179 original size:40 final size:40
Alignment explanation
Indices: 228620995--228621179 Score: 214
Period size: 40 Copynumber: 4.7 Consensus size: 40
228620985 ACGACTTGCT
** *
228620995 CAAATGCCTTCGGGACAAAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * * *
228621035 CGAATGCCTTCGGGACTTAACCCGGGTTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
228621075 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * * *
228621114 CAAACGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
228621155 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
228621180 CATCATTCAA
Statistics
Matches: 124, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 79 0.64
41 11 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:228628532 original size:71 final size:71
Alignment explanation
Indices: 228628448--228628611 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
228628438 CGATTTGTCT
228628448 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
228628513 CTTTCA
66 CTTTCA
228628519 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
228628584 CTTTCA
66 CTTTCA
228628590 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
228628612 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:228628649 original size:71 final size:70
Alignment explanation
Indices: 228628448--228628645 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
228628438 CGATTTGTCT
* * * *
228628448 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
228628513 CTTTCA
65 CTTTCA
* * * *
228628519 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
228628584 CTTTCA
65 CTTTCA
* *
228628590 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
228628646 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:228634818 original size:40 final size:40
Alignment explanation
Indices: 228634759--228634927 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
228634749 CGGGACTTTA
* * *
228634759 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
228634799 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
228634839 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
228634879 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
228634919 CCCGGATAT
1 CCCGGATAT
228634928 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:228642849 original size:40 final size:40
Alignment explanation
Indices: 228642790--228642958 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
228642780 CGGGACTTTA
* * *
228642790 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
228642830 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
228642870 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
228642910 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
228642950 CCCGGATAT
1 CCCGGATAT
228642959 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:228646985 original size:15 final size:15
Alignment explanation
Indices: 228646935--228646987 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
228646925 GTATTGTAAT
*
228646935 TTGGATTTCCTTATC
1 TTGGATTTCTTTATC
* * *
228646950 TTCGACTTCTCTATC
1 TTGGATTTCTTTATC
* *
228646965 TGGGATTTCTTTATG
1 TTGGATTTCTTTATC
228646980 TTGGATTT
1 TTGGATTT
228646988 TGTAATACCT
Statistics
Matches: 28, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.13, C:0.17, G:0.17, T:0.53
Consensus pattern (15 bp):
TTGGATTTCTTTATC
Found at i:228649764 original size:46 final size:46
Alignment explanation
Indices: 228649697--228649912 Score: 315
Period size: 46 Copynumber: 4.7 Consensus size: 46
228649687 GGCAACCTGA
228649697 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
*
228649743 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
* *
228649789 GTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
*** * * *
228649835 GAACAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
* * * *
228649881 GAGTAAGACCATAGTTGAAAGACACTATGGCA
1 GTGTAAGACCATGGTTGAAAGATACCATGGCA
228649913 TCATGTCAAA
Statistics
Matches: 156, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 156 1.00
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
Found at i:228649892 original size:138 final size:130
Alignment explanation
Indices: 228649647--228649912 Score: 379
Period size: 138 Copynumber: 2.0 Consensus size: 130
228649637 AGTGTGCTCT
*
228649647 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGCAAGACCATGGT
* * * * * *
228649712 TGAAAGATACCATGGCAACCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
*
228649777 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAACAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG--A-G---TG--CAAG
*
228649842 ACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACT
58 ACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACC
228649907 ATGGCA
123 ATGGCA
228649913 TCATGTCAAA
Statistics
Matches: 119, Mismatches: 9, Indels: 8
0.88 0.07 0.06
Matches are distributed among these distances:
130 48 0.40
132 1 0.01
133 1 0.01
136 2 0.02
138 67 0.56
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (130 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGCAAGACCATGGT
TGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
Found at i:228655053 original size:46 final size:46
Alignment explanation
Indices: 228654986--228655201 Score: 315
Period size: 46 Copynumber: 4.7 Consensus size: 46
228654976 GGCAACCTGA
228654986 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
*
228655032 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
* *
228655078 GTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
*** * * *
228655124 GAACAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
* * * *
228655170 GAGTAAGACCATAGTTGAAAGACACTATGGCA
1 GTGTAAGACCATGGTTGAAAGATACCATGGCA
228655202 TCATGTCAAA
Statistics
Matches: 156, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 156 1.00
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
Found at i:228655181 original size:138 final size:130
Alignment explanation
Indices: 228654936--228655201 Score: 379
Period size: 138 Copynumber: 2.0 Consensus size: 130
228654926 AGTGTGCTCT
*
228654936 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGCAAGACCATGGT
* * * * * *
228655001 TGAAAGATACCATGGCAACCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
*
228655066 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAACAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG--A-G---TG--CAAG
*
228655131 ACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACT
58 ACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACC
228655196 ATGGCA
123 ATGGCA
228655202 TCATGTCAAA
Statistics
Matches: 119, Mismatches: 9, Indels: 8
0.88 0.07 0.06
Matches are distributed among these distances:
130 48 0.40
132 1 0.01
133 1 0.01
136 2 0.02
138 67 0.56
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (130 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGCAAGACCATGGT
TGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
Found at i:228660573 original size:55 final size:56
Alignment explanation
Indices: 228660508--228660622 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
228660498 AGCATGGCTG
* * *
228660508 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
228660564 CCAGA-ACAGATATACGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
228660619 CCAG
1 CCAG
228660623 GATGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.57
56 21 0.41
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (56 bp):
CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:228660619 original size:28 final size:27
Alignment explanation
Indices: 228660533--228660622 Score: 101
Period size: 27 Copynumber: 3.2 Consensus size: 27
228660523 GTGACAGAGT
*
228660533 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
** *
228660562 CACCAGAACAGAT-ATACGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
228660589 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
228660617 CACCAG
1 CACCAG
228660623 GATGCTTCCT
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.19
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:228660775 original size:28 final size:28
Alignment explanation
Indices: 228660728--228660819 Score: 150
Period size: 28 Copynumber: 3.3 Consensus size: 28
228660718 AAATTAACCC
*
228660728 TAGGGGTATAGA-GGTCATTTTGCATACA
1 TAGGGGTATA-ATGGTAATTTTGCATACA
228660756 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
*
228660784 TAGGGGTATGATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
228660812 TAGGGGTA
1 TAGGGGTA
228660820 CTCTAGTACA
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
27 1 0.02
28 60 0.98
ACGTcount: A:0.29, C:0.08, G:0.29, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:228668516 original size:32 final size:32
Alignment explanation
Indices: 228668462--228668560 Score: 96
Period size: 32 Copynumber: 3.1 Consensus size: 32
228668452 TATGTTTGAC
*
228668462 ATAACT-AAGTGTGTATATATGTGTAGTTGGAT
1 ATAACTGAA-TGTCTATATATGTGTAGTTGGAT
*
228668494 A-AAGTTGAATGTCTATATATGTGT-GATTGGAT
1 ATAA-CTGAATGTCTATATATGTGTAG-TTGGAT
* * * *
228668526 ATAACTGAATGTGTATCTAGGTGTAGTTTGAT
1 ATAACTGAATGTCTATATATGTGTAGTTGGAT
228668558 ATA
1 ATA
228668561 GCCGATTGAG
Statistics
Matches: 55, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
31 3 0.05
32 47 0.85
33 5 0.09
ACGTcount: A:0.31, C:0.04, G:0.24, T:0.40
Consensus pattern (32 bp):
ATAACTGAATGTCTATATATGTGTAGTTGGAT
Found at i:228668743 original size:27 final size:26
Alignment explanation
Indices: 228668712--228668803 Score: 96
Period size: 27 Copynumber: 3.5 Consensus size: 26
228668702 AAGGATGCAT
228668712 TAAGTGTGCGAATTTGATATTGAGCAC
1 TAAGTGTGCGAATTTGAT-TTGAGCAC
* * *
228668739 TAAGTGTGCGAGTTGGATTTAAGCAC
1 TAAGTGTGCGAATTTGATTTGAGCAC
* * *
228668765 TATGTGTGTGAATTAAT-TTTTGAGCAC
1 TAAGTGTGCGAATT--TGATTTGAGCAC
228668792 TAAGTGTGCGAA
1 TAAGTGTGCGAA
228668804 ATCAGTTATT
Statistics
Matches: 52, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
26 18 0.35
27 34 0.65
ACGTcount: A:0.28, C:0.10, G:0.27, T:0.35
Consensus pattern (26 bp):
TAAGTGTGCGAATTTGATTTGAGCAC
Found at i:228677053 original size:49 final size:49
Alignment explanation
Indices: 228676990--228677404 Score: 688
Period size: 49 Copynumber: 8.5 Consensus size: 49
228676980 TGTTGAATCA
228676990 TATATTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATG
1 TATA-TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATG
** *
228677040 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGGGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATG
228677089 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATG
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATG
** *
228677138 TATATGTGATAAGGCCTAATGGCCGAT-TGATGAATGTGAAAGTGGGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATG
228677186 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATG
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATG
* ** *
228677235 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGCGGGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATG
* *
228677284 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTTTG
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATG
*
228677333 TATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATG
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATG
*
228677382 TACATGTGATAAGGCCTAATGGC
1 TATATGTGATAAGGCCTAATGGC
228677405 TAATGCAAAA
Statistics
Matches: 339, Mismatches: 25, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
48 45 0.13
49 290 0.86
50 4 0.01
ACGTcount: A:0.30, C:0.09, G:0.31, T:0.30
Consensus pattern (49 bp):
TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATG
Found at i:228677337 original size:195 final size:196
Alignment explanation
Indices: 228676989--228677404 Score: 746
Period size: 195 Copynumber: 2.1 Consensus size: 196
228676979 ATGTTGAATC
228676989 ATATAT-TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATAAG
1 ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATAAG
*
228677053 GCCTAATGGCCGATGTGATGAATGTGAAAGTGGGTATATATGTGATAAGGCCTAATGGCCGATGT
66 GCCTAATGGCCGATGTGATGAATGTGAAAGCGGGTATATATGTGATAAGGCCTAATGGCCGATGT
228677118 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGAT-TGATGAATGTGAAAGTG
131 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
228677182 G
196 G
*
228677183 GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATAAG
1 ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATAAG
228677248 GCCTAATGGCCGATGTGATGAATGTGAAAGCGGGTATATATGTGATAAGGCCTAATGGCCGATGT
66 GCCTAATGGCCGATGTGATGAATGTGAAAGCGGGTATATATGTGATAAGGCCTAATGGCCGATGT
* * *
228677313 GATGAATGTGGAAGTGTTTGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTG
131 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
228677378 T
196 G
* *
228677379 ATGTACATGTGATAAGGCCTAATGGC
1 ATATATATGTGATAAGGCCTAATGGC
228677405 TAATGCAAAA
Statistics
Matches: 211, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
194 5 0.02
195 167 0.79
196 39 0.18
ACGTcount: A:0.30, C:0.09, G:0.31, T:0.30
Consensus pattern (196 bp):
ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATAAG
GCCTAATGGCCGATGTGATGAATGTGAAAGCGGGTATATATGTGATAAGGCCTAATGGCCGATGT
GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
G
Found at i:228677560 original size:37 final size:37
Alignment explanation
Indices: 228677501--228677620 Score: 190
Period size: 37 Copynumber: 3.3 Consensus size: 37
228677491 GGAATATGTT
* *
228677501 CCGGGTGAGA-CCGATGATTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
228677537 CTGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
228677574 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
228677611 CC-GGTAAGAC
1 CCGGGTAAGAC
228677621 TTCTTTATAA
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
36 16 0.21
37 62 0.79
ACGTcount: A:0.26, C:0.17, G:0.33, T:0.23
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:228681134 original size:45 final size:45
Alignment explanation
Indices: 228681085--228681254 Score: 197
Period size: 45 Copynumber: 3.8 Consensus size: 45
228681075 TGGTTGAGCA
228681085 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAATG
* * *
228681130 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA-T--G
* *
228681175 CATCCGAACTCGTTGAGTTGAGT-CGAGTTCATTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-AATG
*
228681222 -CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
228681255 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 9, Indels: 20
0.79 0.07 0.15
Matches are distributed among these distances:
42 6 0.06
43 1 0.01
44 21 0.20
45 41 0.39
46 7 0.07
47 24 0.23
49 4 0.04
50 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAATG
Found at i:228681238 original size:91 final size:92
Alignment explanation
Indices: 228681082--228681249 Score: 286
Period size: 91 Copynumber: 1.8 Consensus size: 92
228681072 GGATGGTTGA
*
228681082 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAATGTCCGAACTCGTTGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACGTCCGAACTCGTTGAGTT
228681147 GAGTCCGAGTTCGTGAGATGTAACTAG
66 GAGTCCGAGTTCGTGAGATGTAACTAG
* *
228681174 GCATCCGAACTCGTTGAGTTGAGT-CGAGTTCATTTATGGATGCGAACG-CCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-AACGTCCGAACTCGTTGAGT
228681237 TGAGTCCGAGTTC
65 TGAGTCCGAGTTC
228681250 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
91 45 0.62
92 27 0.38
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACGTCCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:228681516 original size:19 final size:20
Alignment explanation
Indices: 228681479--228681516 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
228681469 ATAAGGTGGT
228681479 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
228681499 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
228681517 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:228682945 original size:27 final size:27
Alignment explanation
Indices: 228682914--228682971 Score: 116
Period size: 27 Copynumber: 2.1 Consensus size: 27
228682904 TTCCTCAACC
228682914 TATGCCTCCAATGCCTCAAGGAGTGGA
1 TATGCCTCCAATGCCTCAAGGAGTGGA
228682941 TATGCCTCCAATGCCTCAAGGAGTGGA
1 TATGCCTCCAATGCCTCAAGGAGTGGA
228682968 TATG
1 TATG
228682972 ATAAAATTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (27 bp):
TATGCCTCCAATGCCTCAAGGAGTGGA
Found at i:228688725 original size:46 final size:46
Alignment explanation
Indices: 228688672--228688844 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
228688662 TGGTTGAGCA
*
228688672 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
228688718 TCTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
*
228688765 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCAAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
228688811 CCCGAGCTCGTTGAGTTGAGTCCTAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
228688845 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 15, Indels: 14
0.78 0.11 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 59 0.56
47 28 0.27
48 3 0.03
50 6 0.06
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:228688828 original size:93 final size:93
Alignment explanation
Indices: 228688669--228688839 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
228688659 GGATGGTTGA
* * *
228688669 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
228688734 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
228688762 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCAAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
*
228688827 TGAGTCCTAGTTC
66 TGAGTCCGAGTTC
228688840 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:228689106 original size:19 final size:20
Alignment explanation
Indices: 228689069--228689106 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
228689059 ATAAGGTGGT
228689069 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
228689089 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
228689107 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:228690914 original size:28 final size:28
Alignment explanation
Indices: 228690845--228690945 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
228690835 GACAAGATTG
* * * *
228690845 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
228690875 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
228690903 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
228690932 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
228690946 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:228698862 original size:28 final size:28
Alignment explanation
Indices: 228698793--228698893 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
228698783 GACAAGATTG
* * * *
228698793 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
228698823 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
228698851 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
228698880 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
228698894 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:228704141 original size:40 final size:40
Alignment explanation
Indices: 228704030--228704181 Score: 146
Period size: 40 Copynumber: 3.8 Consensus size: 40
228704020 GATATAGCGG
* * * * *** *
228704030 CTCGCTCAAAAGCCTTCGGGACATAGCCCGGTTATAATAG
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGAA
* *
228704070 CTCGCACAAATGCCTTCGGGACTTAACCCGGATTTGGGAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGAA
* **
228704110 CTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTCA
1 CTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATATGGGAA
*
228704150 CTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 C-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
228704182 CATCATTCGA
Statistics
Matches: 92, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
39 3 0.03
40 78 0.85
41 11 0.12
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGAA
Found at i:228710757 original size:28 final size:28
Alignment explanation
Indices: 228710688--228710788 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
228710678 GACAAGATTG
* * * *
228710688 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
228710718 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
228710746 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
228710775 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
228710789 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:228718699 original size:28 final size:28
Alignment explanation
Indices: 228718630--228718730 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
228718620 GACAAGATTG
* * * *
228718630 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
228718660 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
228718688 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
228718717 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
228718731 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:228723194 original size:40 final size:40
Alignment explanation
Indices: 228723150--228723257 Score: 114
Period size: 40 Copynumber: 2.7 Consensus size: 40
228723140 TAATAGCTCG
*
228723150 CACAAATGCCTTCGGGACTTAACCCGGATTTGGGAACTCT-
1 CACAAATGCCTTCGGGACTTAACCCGGATATGGGAACT-TA
** **
228723190 CACAAATGCCTTC-GGATCTTATTCCGGATATGGTCACTTA
1 CACAAATGCCTTCGGGA-CTTAACCCGGATATGGGAACTTA
*
228723230 GCACAAA-GCCTTCGGGACTTAGCCCGGA
1 -CACAAATGCCTTCGGGACTTAACCCGGA
228723258 CATCATTCGA
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
39 4 0.07
40 44 0.77
41 9 0.16
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CACAAATGCCTTCGGGACTTAACCCGGATATGGGAACTTA
Found at i:228726719 original size:2 final size:2
Alignment explanation
Indices: 228726712--228726739 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
228726702 CGAATTCATT
228726712 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
228726740 TATATATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:228726744 original size:2 final size:2
Alignment explanation
Indices: 228726739--228726776 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
228726729 ACACACACAC
228726739 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
228726777 CGTTCTTTGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:228727059 original size:39 final size:39
Alignment explanation
Indices: 228726979--228727108 Score: 210
Period size: 39 Copynumber: 3.4 Consensus size: 39
228726969 GGTCTTTAAC
* ** *
228726979 CCGGATATTTTTCCAGCACGTAGCCT-CGGACCTCAAGT
1 CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
228727017 CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
1 CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
228727056 CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
1 CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
228727095 CC-GATATATTTCCA
1 CCGGATATATTTCCA
228727109 ATCTCATATA
Statistics
Matches: 87, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
38 35 0.40
39 52 0.60
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.28
Consensus pattern (39 bp):
CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
Found at i:228728256 original size:2 final size:2
Alignment explanation
Indices: 228728249--228728305 Score: 62
Period size: 2 Copynumber: 29.0 Consensus size: 2
228728239 ACATCAAATC
** * *
228728249 TA TA TA TA TA TA TA TA TA TA TA GC GA -A TA TA TA TA TA CA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
228728290 TA TA TA TA TT TA TA TA
1 TA TA TA TA TA TA TA TA
228728306 GCTCATCAAC
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
1 1 0.02
2 46 0.98
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.46
Consensus pattern (2 bp):
TA
Found at i:228735031 original size:39 final size:39
Alignment explanation
Indices: 228734988--228735119 Score: 219
Period size: 39 Copynumber: 3.4 Consensus size: 39
228734978 GGTCTTTAAC
* * ** *
228734988 CCGGATATTTTTCCATCACGTAGCCTGCGGACCTCAAGT
1 CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
228735027 CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
1 CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
228735066 CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
1 CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
228735105 CCGGATATATTTCCA
1 CCGGATATATTTCCA
228735120 ATCTCATATA
Statistics
Matches: 88, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 88 1.00
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.29
Consensus pattern (39 bp):
CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
Found at i:228736269 original size:2 final size:2
Alignment explanation
Indices: 228736262--228736312 Score: 50
Period size: 2 Copynumber: 26.0 Consensus size: 2
228736252 ACATCAAATC
** * *
228736262 TA TA TA TA TA TA TA TA TA GC GA -A TA TA TA TA TA CA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
228736303 TA TT TA TA TA
1 TA TA TA TA TA
228736313 GCTCATCAAC
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (2 bp):
TA
Found at i:228742981 original size:39 final size:39
Alignment explanation
Indices: 228742938--228743065 Score: 204
Period size: 39 Copynumber: 3.3 Consensus size: 39
228742928 CTTTAACCCT
* ** * *
228742938 GATATTTTTCCAGCACGTAGCCTGCGGACCTCAAGTCTG
1 GATATATTTCCAGCATATAGCCTGCGGACCTCATGTCCG
228742977 GATATATTTCCAGCATATAGCCTGCGGACCTCATGTCCG
1 GATATATTTCCAGCATATAGCCTGCGGACCTCATGTCCG
228743016 GATATATTT-CAGCATATAGCCTGCGGACCTCATGTCCG
1 GATATATTTCCAGCATATAGCCTGCGGACCTCATGTCCG
228743054 GATATATTTCCA
1 GATATATTTCCA
228743066 ATCTCATATA
Statistics
Matches: 83, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
38 38 0.46
39 45 0.54
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (39 bp):
GATATATTTCCAGCATATAGCCTGCGGACCTCATGTCCG
Found at i:228743038 original size:38 final size:38
Alignment explanation
Indices: 228742955--228743063 Score: 191
Period size: 38 Copynumber: 2.8 Consensus size: 38
228742945 TTCCAGCACG
* *
228742955 TAGCCTGCGGACCTCAAGTCTGGATATATTTCCAGCATA
1 TAGCCTGCGGACCTCATGTCCGGATATATTT-CAGCATA
228742994 TAGCCTGCGGACCTCATGTCCGGATATATTTCAGCATA
1 TAGCCTGCGGACCTCATGTCCGGATATATTTCAGCATA
228743032 TAGCCTGCGGACCTCATGTCCGGATATATTTC
1 TAGCCTGCGGACCTCATGTCCGGATATATTTC
228743064 CAATCTCATA
Statistics
Matches: 68, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
38 39 0.57
39 29 0.43
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (38 bp):
TAGCCTGCGGACCTCATGTCCGGATATATTTCAGCATA
Found at i:228744205 original size:2 final size:2
Alignment explanation
Indices: 228744198--228744256 Score: 66
Period size: 2 Copynumber: 30.0 Consensus size: 2
228744188 ACATCAAATC
** *
228744198 TA TA TA TA TA TA TA TA TA TA TA TA TA TA CC GA -A TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
228744239 TA CA TA TA TA TT TA TA TA
1 TA TA TA TA TA TA TA TA TA
228744257 GCTCATCAAC
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
1 1 0.02
2 47 0.98
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.46
Consensus pattern (2 bp):
TA
Found at i:228747115 original size:47 final size:48
Alignment explanation
Indices: 228747046--228747215 Score: 254
Period size: 47 Copynumber: 3.6 Consensus size: 48
228747036 ACAGCTTGCG
*
228747046 GTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG-ATGGCTAAT
1 GTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAAT
* *
228747093 GTGAAATATATATGAGACATGTATATGTGGTAAAGCCGAATGGCGAAT
1 GTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAAT
* * *
228747141 GTGAAATATATGTGTGATATGTATATGTGAT-AAGCCGAATGGCTAAT
1 GTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAAT
* *
228747188 GTGAAATATATGTGTGATATGTATATGT
1 GTGAAATATATATGAGATATGTATATGT
228747216 TGCGAATGTG
Statistics
Matches: 114, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
47 79 0.69
48 35 0.31
ACGTcount: A:0.35, C:0.06, G:0.26, T:0.33
Consensus pattern (48 bp):
GTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAAT
Found at i:228748733 original size:21 final size:21
Alignment explanation
Indices: 228748704--228748745 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
228748694 TATATATACC
*
228748704 TTTTAA-TTTTACAATTAATT
1 TTTTAATTTTTAAAATTAATT
228748724 TTTTGAATTTTTAAAATTAATT
1 TTTT-AATTTTTAAAATTAATT
228748746 AATTGTTGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 4 0.21
21 2 0.11
22 13 0.68
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (21 bp):
TTTTAATTTTTAAAATTAATT
Found at i:228749807 original size:39 final size:38
Alignment explanation
Indices: 228749722--228749812 Score: 101
Period size: 39 Copynumber: 2.4 Consensus size: 38
228749712 TTTAAAATAT
* * * *
228749722 ATATATATGTAATAATAGTATTTAAGAATATATACATA
1 ATATATATATAATAATAGCATTAAAAAATATATACATA
* * *
228749760 AGAAATATATAACTAATGGCATTAAAAAATATATACATA
1 ATATATATATAA-TAATAGCATTAAAAAATATATACATA
*
228749799 ATATATATAAAATA
1 ATATATATATAATA
228749813 CCTAAAAAAA
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
38 11 0.26
39 31 0.74
ACGTcount: A:0.55, C:0.04, G:0.07, T:0.34
Consensus pattern (38 bp):
ATATATATATAATAATAGCATTAAAAAATATATACATA
Found at i:228750332 original size:16 final size:14
Alignment explanation
Indices: 228750313--228750347 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
228750303 TTTCTTCTTT
228750313 TTTTTTTTGGGTTAGG
1 TTTTTTTT-GG-TAGG
228750329 TTTTTTTTGGTAGG
1 TTTTTTTTGGTAGG
228750343 TTTTT
1 TTTTT
228750348 CTTTTTCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 2 0.11
16 8 0.42
ACGTcount: A:0.06, C:0.00, G:0.26, T:0.69
Consensus pattern (14 bp):
TTTTTTTTGGTAGG
Found at i:228750352 original size:16 final size:17
Alignment explanation
Indices: 228750312--228750352 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
228750302 TTTTCTTCTT
228750312 TTTTTTTTTGGGTTAGG
1 TTTTTTTTTGGGTTAGG
228750329 -TTTTTTTT-GG-TAGG
1 TTTTTTTTTGGGTTAGG
228750343 TTTTTCTTTT
1 TTTTT-TTTT
228750353 TCTTTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 4 0.18
15 6 0.27
16 12 0.55
ACGTcount: A:0.05, C:0.02, G:0.22, T:0.71
Consensus pattern (17 bp):
TTTTTTTTTGGGTTAGG
Found at i:228750362 original size:16 final size:16
Alignment explanation
Indices: 228750343--228750379 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
228750333 TTTTGGTAGG
228750343 TTTTTCTTT-TTCTTTT
1 TTTTTCTTTGTT-TTTT
228750359 TTTTTCTTTGTTTTTT
1 TTTTTCTTTGTTTTTT
228750375 TTTTT
1 TTTTT
228750380 GGGTTAGGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 18 0.90
17 2 0.10
ACGTcount: A:0.00, C:0.08, G:0.03, T:0.89
Consensus pattern (16 bp):
TTTTTCTTTGTTTTTT
Found at i:228751228 original size:30 final size:30
Alignment explanation
Indices: 228751192--228751253 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
228751182 TTTTGAAAAA
228751192 CAGAAATT-AAAAGACTCAACTCAACTCTCG
1 CAGAAATTAAAAAG-CTCAACTCAACTCTCG
*
228751222 CAGAAATTAAAAAGCTCAACTCACCTCTCG
1 CAGAAATTAAAAAGCTCAACTCAACTCTCG
228751252 CA
1 CA
228751254 ATATGAGTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.42, C:0.29, G:0.10, T:0.19
Consensus pattern (30 bp):
CAGAAATTAAAAAGCTCAACTCAACTCTCG
Found at i:228751370 original size:14 final size:14
Alignment explanation
Indices: 228751351--228751382 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
228751341 GTTGATTTTT
228751351 AAAAACAGAATTTG
1 AAAAACAGAATTTG
*
228751365 AAAAACAGATTTTG
1 AAAAACAGAATTTG
228751379 AAAA
1 AAAA
228751383 TACCTCGACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.59, C:0.06, G:0.12, T:0.22
Consensus pattern (14 bp):
AAAAACAGAATTTG
Found at i:228751376 original size:13 final size:15
Alignment explanation
Indices: 228751345--228751382 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
228751335 ATATGAGTTG
*
228751345 ATTTTTAAAAACAGA
1 ATTTTGAAAAACAGA
228751360 A-TTTGAAAAACAG-
1 ATTTTGAAAAACAGA
228751373 ATTTTGAAAA
1 ATTTTGAAAA
228751383 TACCTCGACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 1 0.05
14 19 0.90
15 1 0.05
ACGTcount: A:0.53, C:0.05, G:0.11, T:0.32
Consensus pattern (15 bp):
ATTTTGAAAAACAGA
Found at i:228751590 original size:243 final size:248
Alignment explanation
Indices: 228751025--228751612 Score: 755
Period size: 252 Copynumber: 2.4 Consensus size: 248
228751015 AACAGACATT
228751025 AAAAACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
* ** * * * * ** *
228751090 TTGATTTTTTAAACTTAACTTGAAAAGCAGATTTTGAAAATACCTCGATATGTGACTGGAGGTTC
66 TTGATTTTTAAAACAGAAATTGAAAAACAGATTTTGAAAATACCTCGACATGTAACCCGAGGCTC
* *
228751155 AACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGACTCAACTCAACTCT
131 AACTCACATCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGAATCAACTCAACTCT
228751220 CGCAGAAATTAAAAAGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAA
196 CGCAG-AATT-AAAAGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTG--A
* *
228751277 AAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
*
228751342 TTGATTTTTAAAAACAGAATTTGAAAAACAGATTTTGAAAATACCTCGACATGTAACCCGAGGCT
66 TTGATTTTT-AAAACAGAAATTGAAAAACAGATTTTGAAAATACCTCGACATGTAACCCGAGGCT
* * * *
228751407 CAACTCACATCTCGCAATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAAA-AAT-ACCTC-A
130 CAACTCACATCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATT-AAAAGAATCAACTCAA
* * * *
228751469 GTGT-G-TG-ATCT-GAAGCTCAACTCACCTCTCGCAATATGAGTTG-A-TTTTTTG-
192 CTCTCGCAGAAT-TAAAAGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGA
* * * * *
228751520 AAAGATAGAAATTGAAAATAGCTCAGCGCATGAGCCAAGGGTCAACTCACCTCTCGCAATATAAG
1 AAAAACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
228751585 TTGATTTTTTGAAAACAGAAATTGAAAA
66 TTGA-TTTTT-AAAACAGAAATTGAAAA
228751613 TACCTCAACG
Statistics
Matches: 299, Mismatches: 31, Indels: 20
0.85 0.09 0.06
Matches are distributed among these distances:
243 62 0.21
244 21 0.07
246 7 0.02
247 1 0.00
248 31 0.10
249 2 0.01
250 1 0.00
251 1 0.00
252 73 0.24
253 73 0.24
254 4 0.01
255 19 0.06
256 4 0.01
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (248 bp):
AAAAACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTAAAACAGAAATTGAAAAACAGATTTTGAAAATACCTCGACATGTAACCCGAGGCTC
AACTCACATCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGAATCAACTCAACTCT
CGCAGAATTAAAAGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGA
Found at i:228751612 original size:167 final size:163
Alignment explanation
Indices: 228751458--228752255 Score: 883
Period size: 165 Copynumber: 4.9 Consensus size: 163
228751448 ATAAATTGAA
* * *
228751458 AAAATACCTCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAA
1 AAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTTTTGAAA
* * * * * * *
228751523 GATAGAAATTGAAAATAGCTCAGCGCATGAGCCAAGGGTCAACTCACCTCTCGCAATATAAGTTG
66 -ACAGAAATTGAAATTACCTCAGCG--TG-CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
228751588 A-TTTTTTGAAA-AC------------A--GAAATTG
127 ATTTTTTTGAAAGACAGAAATTGAAAAACGGAAATTG
* * ** * *
228751609 AAAATACCTCAACGTGT-CT-TGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-ATTTTGAAA
1 AAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTTTTGAAA
*
228751671 ACA-AAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATT
66 ACAGAAATTGAAATTACCTCAGCGTG-CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--
*
228751735 TTTTTTTTTTGAAAGACAGAAATTGAAAAATGGAAATTG
128 ---TTTTTTTGAAAGACAGAAATTGAAAAACGGAAATTG
*
228751774 AAAATACCTC-GACGTGTGATCTGAGGCTCAACTCACCTCTCGTAATACGAGTTGACTTTTTTGA
1 AAAATACCTCAG-CGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGA-TTTTTTGA
* *
228751838 CAA-AGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
64 AAACAGAAATTGAAATTACCTCAGCGTG-CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
* *
228751902 TTTTTTTGAAAGGCAAAAATTGAAAAACGGAAATTG
128 TTTTTTTGAAAGACAGAAATTGAAAAACGGAAATTG
* * * * * *
228751938 AAAATACCTCGGCGTATGACCTGAGGCTCAACTCGCCACTCGCAATACGAGTTGATTTTTTTGAC
1 AAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGA-TTTTTTGAA
* *
228752003 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATCTCTCGCAATATGAGTTGAT
65 AACAGAAATTGAAATTACCTCAGCGTG-CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
228752068 TTTTTTTTGAAAGACAGAAATTGAAAAACGGAAATTG
128 -TTTTTTTGAAAGACAGAAATTGAAAAACGGAAATTG
* * **
228752105 AAAATACCTCAGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGA--AATT-AAA
1 AAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTTTTGAAA
* * *
228752167 ACATAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGA
66 AC--AGAAATTGAAATTACCTCAGCGTG-CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
*
228752232 TTTTTTTGACA-ACAGAAATTGAAA
128 TTTTTTTGAAAGACAGAAATTGAAA
228752256 TTACCTCAGC
Statistics
Matches: 563, Mismatches: 51, Indels: 55
0.84 0.08 0.08
Matches are distributed among these distances:
144 33 0.06
146 18 0.03
147 2 0.00
148 8 0.01
149 31 0.06
150 11 0.02
151 17 0.03
162 13 0.02
163 15 0.03
164 94 0.17
165 138 0.25
166 1 0.00
167 116 0.21
168 1 0.00
169 65 0.12
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (163 bp):
AAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTTTTGAAA
ACAGAAATTGAAATTACCTCAGCGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
TTTTGAAAGACAGAAATTGAAAAACGGAAATTG
Done.