Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 86 of 322
Found at i:27605113 original size:48 final size:48
Alignment explanation
Indices: 27605042--27605281 Score: 293
Period size: 48 Copynumber: 5.0 Consensus size: 48
27605032 ACCGTGCTAA
* * *
27605042 ATGTGCCTATGTAAGACCATGTCTGGGATATGGTATCAGCAATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCAATGATAT
* * * *
27605090 ATGTGCCTGTATAAGGCCATGTCTGGGACATGGCATCGGCGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCAATGATAT
* * **
27605138 ATGTGCATGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCAATGATAT
* *
27605186 ATGTGCTTGTGTAAGACCATGTCTGGGACATGACAT-AGGCAATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCA-GCAATGATAT
* * * * **
27605234 GTGTGCCAGTGTAAGACCATGTTTGGGACATGACATCAGTGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCAATGATAT
27605282 GTGAATTCAT
Statistics
Matches: 168, Mismatches: 22, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
48 167 0.99
49 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (48 bp):
ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCAATGATAT
Found at i:27605295 original size:48 final size:46
Alignment explanation
Indices: 27605050--27605313 Score: 192
Period size: 48 Copynumber: 5.5 Consensus size: 46
27605040 AAATGTGCCT
* ** ** * *
27605050 ATGTAAGACCATGTCTGGGATATGGTATCAGCAATGATATATGTGC
1 ATGTAAGACCATGTCTGGGACATGACATCAGTGATGATATGTGTTC
* * * * * * *
27605096 CTGTATAAGGCCATGTCTGGGACATGGCATCGGCGATGATATATGTGC
1 ATG--TAAGACCATGTCTGGGACATGACATCAGTGATGATATGTGTTC
* *
27605144 ATGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATATGTGCTT-
1 A--TGTAAGACCATGTCTGGGACATGACATCAGTGATG--ATATGTG-TTC
* *
27605194 GTGTAAGACCATGTCTGGGACATGACAT-AG-GCAATGATATGTGTGCC
1 ATGTAAGACCATGTCTGGGACATGACATCAGTG--ATGATATGTGT-TC
*
27605241 AGTGTAAGACCATGTTTGGGACATGACATCAGTGATGATATGTGAATTC
1 A-TGTAAGACCATGTCTGGGACATGACATCAGTGATGATATGTG--TTC
* * *
27605290 ATGTAAGATCATGTCAGAGACATG
1 ATGTAAGACCATGTCTGGGACATG
27605314 GCATTGGTAT
Statistics
Matches: 180, Mismatches: 22, Indels: 30
0.78 0.09 0.13
Matches are distributed among these distances:
45 1 0.01
46 10 0.06
47 1 0.01
48 153 0.85
49 4 0.02
50 10 0.06
51 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (46 bp):
ATGTAAGACCATGTCTGGGACATGACATCAGTGATGATATGTGTTC
Found at i:27605295 original size:96 final size:95
Alignment explanation
Indices: 27605042--27605313 Score: 269
Period size: 96 Copynumber: 2.8 Consensus size: 95
27605032 ACCGTGCTAA
* * * ** ** ** * * *
27605042 ATGTGCCTATGTAAGACCATGTCTGGGATATGGTATCAGCAATGATATATGTGCCTGTATAAGGC
1 ATGTGCATGTGTAAGACCATGTCTGGGACATGACATCAGTGATGA-ATATGTGATTATGTAAGAC
* * *
27605107 CATGTCTGGGACATGGCATCGGCGATGATAT
65 CATGTCTGGGACATGACATAGGCAATGATAT
* * * *
27605138 ATGTGCATGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATATGTGCTTGTGTAAGAC
1 ATGTGCATGTGTAAGACCATGTCTGGGACATGACATCAGTGATGA-ATATGTGATTATGTAAGAC
27605203 CATGTCTGGGACATGACATAGGCAATGATAT
65 CATGTCTGGGACATGACATAGGCAATGATAT
* *
27605234 GTGTGCCA-GTGTAAGACCATGTTTGGGACATGACATCAGTGATG-ATATGTGAATTCATGTAAG
1 ATGTG-CATGTGTAAGACCATGTCTGGGACATGACATCAGTGATGAATATGTG-ATT-ATGTAAG
* * *
27605297 ATCATGTCAGAGACATG
63 ACCATGTCTGGGACATG
27605314 GCATTGGTAT
Statistics
Matches: 151, Mismatches: 22, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
94 7 0.05
95 2 0.01
96 140 0.93
97 2 0.01
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (95 bp):
ATGTGCATGTGTAAGACCATGTCTGGGACATGACATCAGTGATGAATATGTGATTATGTAAGACC
ATGTCTGGGACATGACATAGGCAATGATAT
Found at i:27605303 original size:144 final size:143
Alignment explanation
Indices: 27605042--27605317 Score: 340
Period size: 144 Copynumber: 1.9 Consensus size: 143
27605032 ACCGTGCTAA
* ** * *
27605042 ATGTGCCTATGTAAGACCATGTCTGGGATATGGTATCAGCAATGATATATGTGCCTGTATAAGGC
1 ATGTGCCTATGTAAGACCATGTCTGGGACATGACATCAGCAATGATATATGTGCCAGTATAAGAC
* * * * * *
27605107 CATGTCTGGGACATGGCATCGGCGATGATATATGTGCATGTGTAAGACCATGTCTGGGACATGGC
66 CATGTCTGGGACATGACATCAGCGATGA-ATATGTGAATATGTAAGACCATGTCAGAGACATGGC
27605172 ATCGGTGATGATAT
130 ATCGGTGATGATAT
* * * *
27605186 ATGTGCTTGTGTAAGACCATGTCTGGGACATGACAT-AGGCAATGATATGTGTGCCAGTGTAAGA
1 ATGTGCCTATGTAAGACCATGTCTGGGACATGACATCA-GCAATGATATATGTGCCAGTATAAGA
* * *
27605250 CCATGTTTGGGACATGACATCAGTGATG-ATATGTGAATTCATGTAAGATCATGTCAGAGACATG
65 CCATGTCTGGGACATGACATCAGCGATGAATATGTGAA-T-ATGTAAGACCATGTCAGAGACATG
27605314 GCAT
128 GCAT
27605318 TGGTATTTTA
Statistics
Matches: 111, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
142 8 0.07
143 2 0.02
144 101 0.91
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (143 bp):
ATGTGCCTATGTAAGACCATGTCTGGGACATGACATCAGCAATGATATATGTGCCAGTATAAGAC
CATGTCTGGGACATGACATCAGCGATGAATATGTGAATATGTAAGACCATGTCAGAGACATGGCA
TCGGTGATGATAT
Found at i:27607041 original size:15 final size:17
Alignment explanation
Indices: 27607015--27607048 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
27607005 TATTTAATTA
27607015 TTTATCATCTTTT-AAT
1 TTTATCATCTTTTCAAT
27607031 TTTATCA-CTTTTCAAT
1 TTTATCATCTTTTCAAT
27607047 TT
1 TT
27607049 GTCCTTACCC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.24, C:0.15, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTATCATCTTTTCAAT
Found at i:27609350 original size:19 final size:19
Alignment explanation
Indices: 27609326--27609366 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
27609316 TTGAAGAGTA
27609326 TAATTGAAGTAGAGGTCCT
1 TAATTGAAGTAGAGGTCCT
27609345 TAATTGAAGTAGAGGTCCT
1 TAATTGAAGTAGAGGTCCT
27609364 TAA
1 TAA
27609367 ATGGACATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.34, C:0.10, G:0.24, T:0.32
Consensus pattern (19 bp):
TAATTGAAGTAGAGGTCCT
Found at i:27610504 original size:53 final size:53
Alignment explanation
Indices: 27610386--27610505 Score: 127
Period size: 53 Copynumber: 2.3 Consensus size: 53
27610376 AAACTACTAT
* * * * *
27610386 AAGGCAAAGATCCCATGTAAGACCATGCCAAGGCATAGCAATGGTTAATTCAT
1 AAGGCAAAGATACCACGTAAGACCATGCCAAGACATAGCAATGGTTAATTAAA
* ** *
27610439 AAGGCAAGGATACCACGTAAGACCATGTTAAGACATGGCAATGG-TAAGTTTAAA
1 AAGGCAAAGATACCACGTAAGACCATGCCAAGACATAGCAATGGTTAA--TTAAA
27610493 AAGG-AAAGATACC
1 AAGGCAAAGATACC
27610506 CATGTATCCT
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
52 3 0.05
53 45 0.82
54 7 0.13
ACGTcount: A:0.41, C:0.17, G:0.23, T:0.19
Consensus pattern (53 bp):
AAGGCAAAGATACCACGTAAGACCATGCCAAGACATAGCAATGGTTAATTAAA
Found at i:27620444 original size:40 final size:40
Alignment explanation
Indices: 27620381--27620583 Score: 191
Period size: 40 Copynumber: 5.1 Consensus size: 40
27620371 CGGAATTTAA
* * ** * *
27620381 CCGGATATAGCAACTCGTTCAAATGCCTTTGGGACATAGC
1 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
27620421 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
27620461 CCAGATT-TAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CC-GGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
27620500 CCGG-AATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGTTA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
** * * *
27620540 CCGGAAATAGTCACTTAGCACAAA-GCCTTCGCGACTTAGC
1 CCGGTTATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
27620580 CCGG
1 CCGG
27620584 ACATCATTCG
Statistics
Matches: 137, Mismatches: 18, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
38 3 0.02
39 29 0.21
40 90 0.66
41 15 0.11
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:27620568 original size:79 final size:80
Alignment explanation
Indices: 27620428--27620584 Score: 194
Period size: 79 Copynumber: 2.0 Consensus size: 80
27620418 AGCCCGGTTA
** * *
27620428 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCACCAATGCCTTCG-
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGAAATAGTAACTAGCACCAAAGCCTTCGC
*
27620492 GGCTTAGCCCGGAAT
66 GACTTAGCCCGGAAT
** * *
27620507 TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGGAAATAGTCACTTAGCA-CAAAGCCTTC
1 TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCAGAAATAGTAAC-TAGCACCAAAGCCTTC
27620570 GCGACTTAGCCCGGA
64 GCGACTTAGCCCGGA
27620585 CATCATTCGA
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
78 3 0.05
79 47 0.71
80 16 0.24
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (80 bp):
TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGAAATAGTAACTAGCACCAAAGCCTTCGC
GACTTAGCCCGGAAT
Found at i:27627871 original size:55 final size:53
Alignment explanation
Indices: 27627804--27627940 Score: 159
Period size: 55 Copynumber: 2.6 Consensus size: 53
27627794 GCAAGGAAAT
* *
27627804 CATGTAAGACCATGTCAAGACATGACATTGATAAGCTACTATAAGACAAAGATCC
1 CATGTAAGACCATGTCAAGACATGACAATGATAAG-TAC-ATAAGACAAAGATAC
* * * * * * *
27627859 CATGTAAGACCATGCCAAGGCATGACAATGGTGAGTTCATAAGGCAATGATAC
1 CATGTAAGACCATGTCAAGACATGACAATGATAAGTACATAAGACAAAGATAC
*
27627912 CA-GTAAGACCATGTCAAGACACGACAATG
1 CATGTAAGACCATGTCAAGACATGACAATG
27627941 GTTAGTTTAA
Statistics
Matches: 70, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
52 24 0.34
53 14 0.20
54 2 0.03
55 30 0.43
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.20
Consensus pattern (53 bp):
CATGTAAGACCATGTCAAGACATGACAATGATAAGTACATAAGACAAAGATAC
Found at i:27627938 original size:52 final size:54
Alignment explanation
Indices: 27627804--27627947 Score: 166
Period size: 52 Copynumber: 2.7 Consensus size: 54
27627794 GCAAGGAAAT
* * * *
27627804 CATGTAAGACCATGTCAAGACATGACATTGATAAGCTACTATAAGACAAAGATCC
1 CATGTAAGACCATGTCAAGACATGACAATGGTAAG-TTCTATAAGACAAAGATAC
* * * * *
27627859 CATGTAAGACCATGCCAAGGCATGACAATGGTGAGTTC-ATAAGGCAATGATAC
1 CATGTAAGACCATGTCAAGACATGACAATGGTAAGTTCTATAAGACAAAGATAC
* *
27627912 CA-GTAAGACCATGTCAAGACACGACAATGGTTAGTT
1 CATGTAAGACCATGTCAAGACATGACAATGGTAAGTT
27627948 TAAAAAGGAA
Statistics
Matches: 76, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
52 30 0.39
53 14 0.18
54 2 0.03
55 30 0.39
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.22
Consensus pattern (54 bp):
CATGTAAGACCATGTCAAGACATGACAATGGTAAGTTCTATAAGACAAAGATAC
Found at i:27632165 original size:43 final size:43
Alignment explanation
Indices: 27632108--27632228 Score: 149
Period size: 43 Copynumber: 2.8 Consensus size: 43
27632098 AATGCTAATG
* * *
27632108 TCCCAGACGTGGTCTTACATGTA-ATCACATATCGATGCC-ACTG
1 TCCCAAACGTGGTCTTACATG-AGAACACATATCGATGCCAAC-A
*
27632151 TCCCAAACAG-GGTCTTACACGAGAACACATATCGATGCCAACA
1 TCCCAAAC-GTGGTCTTACATGAGAACACATATCGATGCCAACA
*
27632194 TCCCAAGCGTGGTCTTACATGAGAACACATATCGA
1 TCCCAAACGTGGTCTTACATGAGAACACATATCGA
27632229 AAATCCTATG
Statistics
Matches: 68, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
42 2 0.03
43 63 0.93
44 3 0.04
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.22
Consensus pattern (43 bp):
TCCCAAACGTGGTCTTACATGAGAACACATATCGATGCCAACA
Found at i:27640071 original size:28 final size:29
Alignment explanation
Indices: 27640002--27640074 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 29
27639992 AATGTTTTTA
27640002 GGCCTAATGGGCCATACGAATGTGATTTG
1 GGCCTAATGGGCCATACGAATGTGATTTG
* *
27640031 GGCCTAATAGGCCATAGGAA--TGATATTG
1 GGCCTAATGGGCCATACGAATGTGAT-TTG
* *
27640059 GGCTTAGTGGGCCATA
1 GGCCTAATGGGCCATA
27640075 TGCATGTATG
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
27 4 0.11
28 16 0.42
29 18 0.47
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
GGCCTAATGGGCCATACGAATGTGATTTG
Found at i:27647766 original size:29 final size:29
Alignment explanation
Indices: 27647699--27647773 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 29
27647689 GTATGACTAT
* *
27647699 GAATGTGATTTGGGCCTAATGGGCCATAC
1 GAATGAGATTTGGGCCTAATGGGCCAAAC
* *
27647728 GAATGTGATTTGGGCCTAATGGGCCAAAG
1 GAATGAGATTTGGGCCTAATGGGCCAAAC
*
27647757 GTATGAGA-TTGGGCCTA
1 GAATGAGATTTGGGCCTA
27647774 GTAGGTCATA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
28 9 0.21
29 33 0.79
ACGTcount: A:0.25, C:0.15, G:0.33, T:0.27
Consensus pattern (29 bp):
GAATGAGATTTGGGCCTAATGGGCCAAAC
Found at i:27648922 original size:20 final size:19
Alignment explanation
Indices: 27648878--27648926 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
27648868 CAAAGTAATT
* *
27648878 AAGGTTTTTCATTGTGAGG
1 AAGGTTTTTCATTCTAAGG
27648897 AAGGTTTTTCATTCTAAGG
1 AAGGTTTTTCATTCTAAGG
*
27648916 AAGGGTTTTCA
1 AAGGTTTTTCA
27648927 ATGAAAACAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.24, C:0.08, G:0.27, T:0.41
Consensus pattern (19 bp):
AAGGTTTTTCATTCTAAGG
Found at i:27651853 original size:46 final size:46
Alignment explanation
Indices: 27651801--27652073 Score: 372
Period size: 46 Copynumber: 6.0 Consensus size: 46
27651791 AGTGTGCTCT
**
27651801 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
**
27651847 CTGATATGAAATGTGTAAGACCAT-GTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
27651892 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
27651938 ATGAT-GGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* *
27651984 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
27652030 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCA
27652074 TCATGTCAAA
Statistics
Matches: 209, Mismatches: 14, Indels: 8
0.90 0.06 0.03
Matches are distributed among these distances:
45 45 0.22
46 163 0.78
47 1 0.00
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:27652092 original size:137 final size:137
Alignment explanation
Indices: 27651816--27652096 Score: 388
Period size: 137 Copynumber: 2.1 Consensus size: 137
27651806 ATGAAATGTG
* **
27651816 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGTTGAAAGAT
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAATAAGACCATGTTGAAAGAT
* * * * *
27651881 ACCATGGCAACCTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGATGGA
66 ACCATGGCAACATGACATGAAATGAATAAGACCATAGTTGAAAGACACCATGGCAACATGATGCA
*
27651946 AAATGAA
131 AAATAAA
* *
27651953 TAAGACCATGGTTGAAAGATACCATGGCAGCGTGACATGAAATGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAATAAGACCAT-GTTGAAAGA
* * *
27652018 TACCATGGCAACATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG-T-
65 TACCATGGCAACATGACATG-AAATGAATAAGACCATAGTTGAAAGACACCATGGCAACATGATG
27652080 CAAAGATAAA
129 CAAA-ATAAA
27652090 TAAGACC
1 TAAGACC
27652097 GTGGATGGGA
Statistics
Matches: 127, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
136 3 0.02
137 63 0.50
138 61 0.48
ACGTcount: A:0.42, C:0.15, G:0.22, T:0.21
Consensus pattern (137 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAATAAGACCATGTTGAAAGAT
ACCATGGCAACATGACATGAAATGAATAAGACCATAGTTGAAAGACACCATGGCAACATGATGCA
AAATAAA
Found at i:27652378 original size:16 final size:17
Alignment explanation
Indices: 27652359--27652391 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
27652349 ATGATGGTGC
27652359 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
27652375 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
27652392 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:27654225 original size:43 final size:42
Alignment explanation
Indices: 27654170--27654297 Score: 125
Period size: 43 Copynumber: 3.0 Consensus size: 42
27654160 ATATTGTATA
* * * *
27654170 ATGCCAACGTCCCAGACATGGTTTTACATGTA-ATCACATATCG
1 ATGCC-ACGTCCCAGACAGGGTCTTACACG-AGAACACATATCG
27654213 ATGCCACTGTCCCAGACAGGGTCTTACACGAGAACACATATCG
1 ATGCCAC-GTCCCAGACAGGGTCTTACACGAGAACACATATCG
* * * *
27654256 ATGCCAACATCCCAGAC-GTCGTCTTACATGAGAAAACATATC
1 ATGCC-ACGTCCCAGACAG-GGTCTTACACGAGAACACATATC
27654298 AAAAATCCTA
Statistics
Matches: 73, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
42 4 0.05
43 67 0.92
44 2 0.03
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (42 bp):
ATGCCACGTCCCAGACAGGGTCTTACACGAGAACACATATCG
Found at i:27657264 original size:48 final size:50
Alignment explanation
Indices: 27657155--27657277 Score: 153
Period size: 48 Copynumber: 2.5 Consensus size: 50
27657145 CTAAATGTTC
* * * ** *
27657155 ATATCATGGCTCGAGGCCAACTCAATGTATCTCACACTCCAGAAGTGCTA
1 ATATCATGGCCCGAAGCCAAATCAATAAAGCTCACACTCCAGAAGTGCTA
*
27657205 ATATCATGGCCCGAAGCCAAATCAATAAAGCTCGCAC-CC-GAAGTGC-A
1 ATATCATGGCCCGAAGCCAAATCAATAAAGCTCACACTCCAGAAGTGCTA
27657252 GATATCATGGCCCGAAGCCAAATCAA
1 -ATATCATGGCCCGAAGCCAAATCAA
27657278 AGTATCCTCT
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
47 1 0.02
48 32 0.49
49 2 0.03
50 30 0.46
ACGTcount: A:0.34, C:0.28, G:0.19, T:0.19
Consensus pattern (50 bp):
ATATCATGGCCCGAAGCCAAATCAATAAAGCTCACACTCCAGAAGTGCTA
Found at i:27663093 original size:46 final size:46
Alignment explanation
Indices: 27663043--27663132 Score: 171
Period size: 46 Copynumber: 2.0 Consensus size: 46
27663033 TGGTTGAGCA
27663043 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTAATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTAATGGATGCGAATG
*
27663089 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTAATGGATGCGAA
27663133 CGCCCGAGCT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTAATGGATGCGAATG
Found at i:27663215 original size:46 final size:46
Alignment explanation
Indices: 27663024--27663215 Score: 153
Period size: 46 Copynumber: 4.1 Consensus size: 46
27663014 AAGTGACATG
27663024 TCACTAGGATGGTTGAGCATCCGAACTCGTTGAGTTGAGTCCGAGT
1 TCACTAGGATGGTTGAGCATCCGAACTCGTTGAGTTGAGTCCGAGT
* * *
27663070 TCACTA--ATGGATGCGAATGTCCGAACTCGTTGAGTTGAGTCCGAGT
1 TCACTAGGATGGTTGAGCA--TCCGAACTCGTTGAGTTGAGTCCGAGT
* * ** * * ** *
27663116 TCACTTATGGAT-G-CGAACGCCCGAGCTCATTGAAGATACAAGT--GACAT
1 TCAC-TA-GGATGGTTGAGCATCCGAACTCGTTG-AG-T-TGAGTCCGA-GT
27663164 GTCACTAGGATGGTTGAGCATCCGAACTCGTTGAGTTGAGTCCGAGT
1 -TCACTAGGATGGTTGAGCATCCGAACTCGTTGAGTTGAGTCCGAGT
27663211 TCACT
1 TCACT
27663216 TAGGGGCGGG
Statistics
Matches: 108, Mismatches: 23, Indels: 30
0.67 0.14 0.19
Matches are distributed among these distances:
44 8 0.07
46 55 0.51
47 12 0.11
48 10 0.09
49 21 0.19
50 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (46 bp):
TCACTAGGATGGTTGAGCATCCGAACTCGTTGAGTTGAGTCCGAGT
Found at i:27666809 original size:43 final size:41
Alignment explanation
Indices: 27666759--27666863 Score: 111
Period size: 42 Copynumber: 2.5 Consensus size: 41
27666749 ATATCCAAAA
**
27666759 TATGGTCTTACATGTAATCTTGTATCAATGCCAATAGCCCAGC
1 TATGGTCTTACA-GTAATCTCATATCAATGCC-ATAGCCCAGC
* ** * *
27666802 TATGGTCTTACACTAAGTCTCATATTGATGCCATATCCCAGG
1 TATGGTCTTACAGTAA-TCTCATATCAATGCCATAGCCCAGC
27666844 TATGGTCTTACACGTAATCT
1 TATGGTCTTACA-GTAATCT
27666864 AAGTAACCCT
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
42 26 0.50
43 26 0.50
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (41 bp):
TATGGTCTTACAGTAATCTCATATCAATGCCATAGCCCAGC
Found at i:27678257 original size:12 final size:12
Alignment explanation
Indices: 27678240--27678264 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27678230 AATATGTTAT
27678240 TATAATAAAACA
1 TATAATAAAACA
27678252 TATAATAAAACA
1 TATAATAAAACA
27678264 T
1 T
27678265 CATGCATTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (12 bp):
TATAATAAAACA
Found at i:27679241 original size:56 final size:55
Alignment explanation
Indices: 27679161--27679280 Score: 177
Period size: 56 Copynumber: 2.2 Consensus size: 55
27679151 CTTAGCATCA
* *
27679161 ATATATGTGTGCAGTAAGACCACGTTTAATATGTTGGCATCGATATGTGATTCTG
1 ATATATGTGTGCAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCCG
* * *
27679216 ATATATGTGTGCGAGTAAGATCACGTTTAATACGTTGTCATCTATATGTGATTCCG
1 ATATATGTGTGC-AGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCCG
*
27679272 GTATATGTG
1 ATATATGTG
27679281 ATTACATGTA
Statistics
Matches: 58, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
55 12 0.21
56 46 0.79
ACGTcount: A:0.27, C:0.12, G:0.23, T:0.38
Consensus pattern (55 bp):
ATATATGTGTGCAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCCG
Found at i:27686325 original size:27 final size:26
Alignment explanation
Indices: 27686251--27686501 Score: 109
Period size: 27 Copynumber: 9.3 Consensus size: 26
27686241 CAAAATAGTC
* * * *
27686251 ATTTTACCCTACAGGGGTATGTCGGTC
1 ATTTTACACTACAAGGGTATTTC-GTA
*
27686278 ATTTCACACTACAAGGGTATTTCAGTA
1 ATTTTACACTACAAGGGTATTTC-GTA
27686305 ATTTTACACTACAAGGGTATTTCGATA
1 ATTTTACACTACAAGGGTATTTCG-TA
* *** * *
27686332 ATTTTACA-AATTGGGGGTGTTTTGGTA
1 ATTTTACACTA-CAAGGGT-ATTTCGTA
* **
27686359 ATTTTACA-AATTGAGGGTATTTCGGTA
1 ATTTTACACTA-CAAGGGTATTTC-GTA
* *
27686386 ATTTTACA-AATTAAGGGTATTTCGGTA
1 ATTTTACACTA-CAAGGGTATTTC-GTA
* **
27686413 ATTTTACAAATTGAA-GGTATTTCGGTA
1 ATTTTAC-ACTACAAGGGTATTTC-GTA
* *
27686440 ATTTTACA-AATCGAGGGTATTTCGATA
1 ATTTTACACTA-CAAGGGTATTTCG-TA
* * *
27686467 ATTTTACA-AATCAAGGGTGTTTTGATA
1 ATTTTACACTA-CAAGGGTATTTCG-TA
27686494 ATTTTACA
1 ATTTTACA
27686502 AATCGAGGGT
Statistics
Matches: 188, Mismatches: 27, Indels: 18
0.81 0.12 0.08
Matches are distributed among these distances:
26 8 0.04
27 173 0.92
28 7 0.04
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (26 bp):
ATTTTACACTACAAGGGTATTTCGTA
Found at i:27686502 original size:27 final size:27
Alignment explanation
Indices: 27686291--27686631 Score: 370
Period size: 27 Copynumber: 12.7 Consensus size: 27
27686281 TCACACTACA
* *
27686291 AGGGTATTTC-AGTAATTTTAC-ACTACA
1 AGGGTATTTCGA-TAATTTTACAAAT-CG
*
27686318 AGGGTATTTCGATAATTTTACAAATTG
1 AGGGTATTTCGATAATTTTACAAATCG
* * * * *
27686345 GGGGTGTTTTGGTAATTTTACAAATTG
1 AGGGTATTTCGATAATTTTACAAATCG
* **
27686372 AGGGTATTTCGGTAATTTTACAAATTA
1 AGGGTATTTCGATAATTTTACAAATCG
* *
27686399 AGGGTATTTCGGTAATTTTACAAATTG
1 AGGGTATTTCGATAATTTTACAAATCG
* *
27686426 AAGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
*
27686453 AGGGTATTTCGATAATTTTACAAATCA
1 AGGGTATTTCGATAATTTTACAAATCG
* *
27686480 AGGGTGTTTTGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* *
27686507 AGGGTGTTTCGATAATTTCACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
27686534 AGAGTATTTCAATAACTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
*
27686561 -GAGGTATTTCGATAATTTCAC-AATCG
1 AG-GGTATTTCGATAATTTTACAAATCG
*
27686587 AAGGTATGTT-GATAATTTTACAAATCG
1 AGGGTAT-TTCGATAATTTTACAAATCG
27686614 AGGGTATTTC-AGTAATTT
1 AGGGTATTTCGA-TAATTT
27686632 CTCTTTATTA
Statistics
Matches: 272, Mismatches: 34, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
26 24 0.09
27 245 0.90
28 3 0.01
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.38
Consensus pattern (27 bp):
AGGGTATTTCGATAATTTTACAAATCG
Found at i:27687001 original size:27 final size:28
Alignment explanation
Indices: 27686947--27687002 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
27686937 TCGCCCCTTT
* *
27686947 AGGCCCAATCTCGTTCACATGGCCCATC
1 AGGCCCAATCACATTCACATGGCCCATC
*
27686975 AGGCCCAATCACATTC-TATGGCCCATC
1 AGGCCCAATCACATTCACATGGCCCATC
27687002 A
1 A
27687003 TGTAACACCC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 11 0.44
28 14 0.56
ACGTcount: A:0.25, C:0.38, G:0.16, T:0.21
Consensus pattern (28 bp):
AGGCCCAATCACATTCACATGGCCCATC
Found at i:27687082 original size:17 final size:18
Alignment explanation
Indices: 27687060--27687093 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
27687050 TTACATTGAA
27687060 GTGTTTT-AGTGAAAACT
1 GTGTTTTCAGTGAAAACT
*
27687077 GTGTTTTCATTGAAAAC
1 GTGTTTTCAGTGAAAAC
27687094 CCTTCTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (18 bp):
GTGTTTTCAGTGAAAACT
Found at i:27688207 original size:29 final size:29
Alignment explanation
Indices: 27688166--27688282 Score: 144
Period size: 29 Copynumber: 4.0 Consensus size: 29
27688156 TGGCCCATCT
* *
27688166 CATTCATATGGCCCATCAGGCCCAATTCA
1 CATTCATATGGCCTATTAGGCCCAATTCA
27688195 CATTCATATGGCCTATTAGGCCCAATTCA
1 CATTCATATGGCCTATTAGGCCCAATTCA
* **
27688224 TATTCATATGGCCTATTAGGCCCAAAGCA
1 CATTCATATGGCCTATTAGGCCCAATTCA
* * * * *
27688253 CCTTTATATGGCCTGTTAGGTCCAAATCA
1 CATTCATATGGCCTATTAGGCCCAATTCA
27688282 C
1 C
27688283 CTTATATTCA
Statistics
Matches: 77, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 77 1.00
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.29
Consensus pattern (29 bp):
CATTCATATGGCCTATTAGGCCCAATTCA
Found at i:27692618 original size:27 final size:28
Alignment explanation
Indices: 27692582--27692849 Score: 227
Period size: 27 Copynumber: 10.0 Consensus size: 28
27692572 TTTAACTACA
27692582 AGGGTATTTTGAG-AATTTTACAAATCG
1 AGGGTATTTTGAGTAATTTTACAAATCG
* * * *
27692609 GGGGTGTTTTG-GTAATAATTACAAATCA
1 AGGGTATTTTGAGTAAT-TTTACAAATCG
*
27692637 AGGGTATTTTG-GTAATTTTACAAATTG
1 AGGGTATTTTGAGTAATTTTACAAATCG
* *
27692664 AGGGTA-TTTCAATAATTTTACAAATCG
1 AGGGTATTTTGAGTAATTTTACAAATCG
* *
27692691 AGGGTGTTTCGA-TAATTTTACAAATCG
1 AGGGTATTTTGAGTAATTTTACAAATCG
* *
27692718 AGGGT-GTTTCAGTAATTTTACAAATCG
1 AGGGTATTTTGAGTAATTTTACAAATCG
* * * * *
27692745 AGGGT-GTTTCAGTGATTTCACAAATCA
1 AGGGTATTTTGAGTAATTTTACAAATCG
* *
27692772 AGGGTATTTTCA-TAATTTTTCAAATCG
1 AGGGTATTTTGAGTAATTTTACAAATCG
* * * * *
27692799 GGGGCA-TTTCAGTAATTTCAC-AATTG
1 AGGGTATTTTGAGTAATTTTACAAATCG
*
27692825 AGGGTATTTCGA-TAA-TTTACAAATC
1 AGGGTATTTTGAGTAATTTTACAAATC
27692850 AAGCGCATTT
Statistics
Matches: 195, Mismatches: 37, Indels: 19
0.78 0.15 0.08
Matches are distributed among these distances:
25 4 0.02
26 26 0.13
27 134 0.69
28 31 0.16
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (28 bp):
AGGGTATTTTGAGTAATTTTACAAATCG
Found at i:27692707 original size:54 final size:54
Alignment explanation
Indices: 27692627--27692869 Score: 251
Period size: 54 Copynumber: 4.5 Consensus size: 54
27692617 TTGGTAATAA
* ** * *
27692627 TTACAAATCAAGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCAATAATT
1 TTACAAATCGAGGGTATTTCAGTAATTTCACAAATCGAGGGTATTTCAATAATT
* * * *
27692681 TTACAAATCGAGGGTGTTTC-GATAATTTTACAAATCGAGGGTGTTTCAGTAATT
1 TTACAAATCGAGGGTATTTCAG-TAATTTCACAAATCGAGGGTATTTCAATAATT
* * *
27692735 TTACAAATCGAGGGTGTTTCAGTGATTTCACAAATCAAGGGTATTTTC-ATAATT
1 TTACAAATCGAGGGTATTTCAGTAATTTCACAAATCGAGGGTA-TTTCAATAATT
* * * * *
27692789 TTTCAAATCGGGGGCATTTCAGTAATTTCAC-AATTGAGGGTATTTCGATAA-T
1 TTACAAATCGAGGGTATTTCAGTAATTTCACAAATCGAGGGTATTTCAATAATT
* * * *
27692841 TTACAAATCAAGCGCATTTCAATAATTTC
1 TTACAAATCGAGGGTATTTCAGTAATTTC
27692870 TCTTTATTAT
Statistics
Matches: 162, Mismatches: 23, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
52 29 0.18
53 14 0.09
54 114 0.70
55 5 0.03
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.37
Consensus pattern (54 bp):
TTACAAATCGAGGGTATTTCAGTAATTTCACAAATCGAGGGTATTTCAATAATT
Found at i:27692722 original size:81 final size:81
Alignment explanation
Indices: 27692595--27692849 Score: 291
Period size: 81 Copynumber: 3.2 Consensus size: 81
27692585 GTATTTTGAG
* * * * * **
27692595 AATTTTACAAATCGGGGGTGTTTTGGTAATAATTACAAATCAAGGGTATTTTGGTAATTTTACAA
1 AATTTTACAAATCGAGGGTGTTTCGATAAT-TTTACAAATCGAGGGTATTTCAGTAATTTTACAA
27692660 ATTGAGGGTATTTCAAT
65 ATTGAGGGTATTTCAAT
*
27692677 AATTTTACAAATCGAGGGTGTTTCGATAATTTTACAAATCGAGGGTGTTTCAGTAATTTTACAAA
1 AATTTTACAAATCGAGGGTGTTTCGATAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAA
* * *
27692742 TCGAGGGTGTTTCAGT
66 TTGAGGGTATTTCAAT
* * * * * * * *
27692758 GATTTCACAAATCAAGGGTATTTTC-ATAATTTTTCAAATCGGGGGCATTTCAGTAATTTCAC-A
1 AATTTTACAAATCGAGGGT-GTTTCGATAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAA
*
27692821 ATTGAGGGTATTTCGAT
65 ATTGAGGGTATTTCAAT
27692838 AA-TTTACAAATC
1 AATTTTACAAATC
27692850 AAGCGCATTT
Statistics
Matches: 146, Mismatches: 26, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
79 9 0.06
80 15 0.10
81 91 0.62
82 31 0.21
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.38
Consensus pattern (81 bp):
AATTTTACAAATCGAGGGTGTTTCGATAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAA
TTGAGGGTATTTCAAT
Found at i:27695133 original size:20 final size:20
Alignment explanation
Indices: 27695100--27695174 Score: 102
Period size: 20 Copynumber: 3.9 Consensus size: 20
27695090 ATACGTGGGA
27695100 TATGATAT--ACATGAT-TG
1 TATGATATGCACATGATATG
*
27695117 ATATGATATGAACATGATATG
1 -TATGATATGCACATGATATG
27695138 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
27695158 TATGAAATGCACATGAT
1 TATGATATGCACATGAT
27695175 GTAATCATAA
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
18 8 0.15
20 42 0.81
21 2 0.04
ACGTcount: A:0.39, C:0.08, G:0.19, T:0.35
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:27695135 original size:11 final size:10
Alignment explanation
Indices: 27695101--27695157 Score: 57
Period size: 9 Copynumber: 5.8 Consensus size: 10
27695091 TACGTGGGAT
27695101 ATGATAT-AC
1 ATGATATGAC
*
27695110 ATGAT-TGAT
1 ATGATATGAC
27695119 ATGATATGAAC
1 ATGATATG-AC
*
27695130 ATGATATG-T
1 ATGATATGAC
27695139 ATGATATGCAC
1 ATGATATG-AC
27695150 ATGATATG
1 ATGATATG
27695158 TATGAAATGC
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 1 0.03
9 19 0.49
10 2 0.05
11 17 0.44
ACGTcount: A:0.39, C:0.07, G:0.19, T:0.35
Consensus pattern (10 bp):
ATGATATGAC
Found at i:27695273 original size:26 final size:26
Alignment explanation
Indices: 27695224--27695334 Score: 165
Period size: 26 Copynumber: 4.4 Consensus size: 26
27695214 GAGGAAGTGC
*
27695224 AAAAGGGC-TATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
27695249 AAAAGGGCTTATGCCCCAGTCTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
27695275 AAAAGAGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
27695301 AAAAGGGCTT-TGCCCCAGTTTA-TC
1 AAAAGGGCTTATGCCCCAGTTTATTG
27695325 AAAAGGGCTT
1 AAAAGGGCTT
27695335 TGCTATGCTG
Statistics
Matches: 79, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
24 11 0.14
25 20 0.25
26 48 0.61
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:27703158 original size:20 final size:20
Alignment explanation
Indices: 27703125--27703199 Score: 102
Period size: 20 Copynumber: 3.9 Consensus size: 20
27703115 ATACGTGGGA
27703125 TATGATAT--ACATGAT-TG
1 TATGATATGCACATGATATG
27703142 ATATGATATGCACATGATATG
1 -TATGATATGCACATGATATG
*
27703163 TATGATATACACATGATATG
1 TATGATATGCACATGATATG
*
27703183 TATGAAATGCACATGAT
1 TATGATATGCACATGAT
27703200 GTAATCATAA
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
18 8 0.16
20 41 0.80
21 2 0.04
ACGTcount: A:0.39, C:0.09, G:0.17, T:0.35
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:27703309 original size:26 final size:26
Alignment explanation
Indices: 27703249--27703358 Score: 174
Period size: 26 Copynumber: 4.4 Consensus size: 26
27703239 GAGGAAGTGC
27703249 AAAAGGGC-TATGCCCCAGTTTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
27703273 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
27703299 AAAAGGGCTTATGCACCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
27703325 AAAAGGGCTT-TGCCCCAGTTTA-TC
1 AAAAGGGCTTATGCCCCAGTTTATTG
27703349 AAAAGGGCTT
1 AAAAGGGCTT
27703359 TGCTATGCTG
Statistics
Matches: 81, Mismatches: 3, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
24 19 0.23
25 27 0.33
26 35 0.43
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:27703339 original size:51 final size:50
Alignment explanation
Indices: 27703248--27703358 Score: 172
Period size: 51 Copynumber: 2.2 Consensus size: 50
27703238 GGAGGAAGTG
*
27703248 CAAAAGGGC-TATGCCCCAGTTTATTAAAAGGGCTTATGCCCCAGTTTATT
1 CAAAAGGGCTTATGCACCAGTTTATTAAAAGGGCTTATGCCCCAGTTTA-T
*
27703298 GAAAAGGGCTTATGCACCAGTTTATTGAAAAGGGCTT-TGCCCCAGTTTAT
1 CAAAAGGGCTTATGCACCAGTTTATT-AAAAGGGCTTATGCCCCAGTTTAT
27703348 CAAAAGGGCTT
1 CAAAAGGGCTT
27703359 TGCTATGCTG
Statistics
Matches: 56, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
50 19 0.34
51 27 0.48
52 10 0.18
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.29
Consensus pattern (50 bp):
CAAAAGGGCTTATGCACCAGTTTATTAAAAGGGCTTATGCCCCAGTTTAT
Found at i:27703956 original size:18 final size:18
Alignment explanation
Indices: 27703933--27703968 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
27703923 GACTTAGGAT
*
27703933 TTGTTTTCAAAACGACAC
1 TTGTTTTCAAAACAACAC
*
27703951 TTGTTTTCGAAACAACAC
1 TTGTTTTCAAAACAACAC
27703969 AACCTTATGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.33
Consensus pattern (18 bp):
TTGTTTTCAAAACAACAC
Found at i:27705219 original size:14 final size:14
Alignment explanation
Indices: 27705196--27705226 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
27705186 GATTGAGACG
*
27705196 GAATTGTGAAATAA
1 GAATTATGAAATAA
27705210 GAATTATGAAATAA
1 GAATTATGAAATAA
27705224 GAA
1 GAA
27705227 AATTACGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.19, T:0.26
Consensus pattern (14 bp):
GAATTATGAAATAA
Found at i:27705739 original size:12 final size:12
Alignment explanation
Indices: 27705722--27705746 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27705712 AATATGTTAT
27705722 TATAATAAAACA
1 TATAATAAAACA
27705734 TATAATAAAACA
1 TATAATAAAACA
27705746 T
1 T
27705747 CATGCATTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (12 bp):
TATAATAAAACA
Found at i:27707565 original size:27 final size:27
Alignment explanation
Indices: 27707514--27707591 Score: 102
Period size: 27 Copynumber: 2.8 Consensus size: 27
27707504 TGACAGAGTC
*
27707514 ACCAGATACAGATATTTTGTGGCAGTGCA
1 ACCAGA-ACAGATA-TTTGTGGCAGGGCA
* *
27707543 ACCAGAACAGATATATGTGGCAGGGCC
1 ACCAGAACAGATATTTGTGGCAGGGCA
*
27707570 ACCAGAACAGAAATTTGTGGCA
1 ACCAGAACAGATATTTGTGGCA
27707592 TAGCCACTAG
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
27 31 0.70
28 7 0.16
29 6 0.14
ACGTcount: A:0.35, C:0.19, G:0.26, T:0.21
Consensus pattern (27 bp):
ACCAGAACAGATATTTGTGGCAGGGCA
Found at i:27707754 original size:28 final size:28
Alignment explanation
Indices: 27707707--27707939 Score: 441
Period size: 28 Copynumber: 8.3 Consensus size: 28
27707697 AAATTAACCC
*
27707707 TAGGGGTATAGA-GGTCATTTTGCATACA
1 TAGGGGTATA-ATGGTAATTTTGCATACA
27707735 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
27707763 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
27707791 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
27707819 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
27707847 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
27707875 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
27707903 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
27707931 TAGGGGTAT
1 TAGGGGTAT
27707940 TCTAGTACAT
Statistics
Matches: 203, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
27 1 0.00
28 202 1.00
ACGTcount: A:0.31, C:0.07, G:0.26, T:0.35
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:27715590 original size:55 final size:56
Alignment explanation
Indices: 27715525--27715639 Score: 130
Period size: 55 Copynumber: 2.1 Consensus size: 56
27715515 AGCATGGCTG
* *
27715525 CCAGATACAGA-AAATGTGAC-AGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAAG-GCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
** *
27715581 CCAGA-ACAGATATGTGTGGCAAGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAAGGCCACCAGAACAGATAATTTGTGGCATAGCCA
27715636 CCAG
1 CCAG
27715640 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
54 1 0.02
55 29 0.57
56 19 0.37
57 2 0.04
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAAGGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:27715607 original size:27 final size:27
Alignment explanation
Indices: 27715550--27715639 Score: 112
Period size: 28 Copynumber: 3.2 Consensus size: 27
27715540 GTGACAGAGT
27715550 CACCAGATACAGATATTTTGTGGC-AGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAAG-GC
*
27715579 CACCAGAACAGATATGTGTGGCAAGGC
1 CACCAGAACAGATATTTGTGGCAAGGC
27715606 CACCAGAACAGATAATTTGTGGCATA-GC
1 CACCAGAACAGAT-ATTTGTGGCA-AGGC
27715634 CACCAG
1 CACCAG
27715640 GACGCTTCCT
Statistics
Matches: 56, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
27 22 0.39
28 26 0.46
29 8 0.14
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAAGGC
Found at i:27715635 original size:28 final size:28
Alignment explanation
Indices: 27715550--27715639 Score: 114
Period size: 27 Copynumber: 3.2 Consensus size: 28
27715540 GTGACAGAGT
*
27715550 CACCAGATACAGATATTTTGTGGCAGT-GC
1 CACCAGA-ACAGATAATTTGTGGCA-TAGC
*
27715579 CACCAGAACAGAT-ATGTGTGGCA-AGGC
1 CACCAGAACAGATAATTTGTGGCATA-GC
27715606 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCATAGC
27715634 CACCAG
1 CACCAG
27715640 GACGCTTCCT
Statistics
Matches: 54, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
27 23 0.43
28 23 0.43
29 8 0.15
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTGGCATAGC
Found at i:27715792 original size:28 final size:28
Alignment explanation
Indices: 27715745--27716593 Score: 1673
Period size: 28 Copynumber: 30.3 Consensus size: 28
27715735 AAATTAACCC
*
27715745 TAGGGGTATAGA-GGTCATTTTGCATACA
1 TAGGGGTATA-ATGGTAATTTTGCATACA
27715773 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
27715801 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
27715829 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
27715857 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
27715885 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
27715913 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
27715941 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
27715969 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
27715997 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
27716025 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
27716053 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
27716081 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
27716109 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
27716137 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
27716165 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
27716193 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
27716221 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
27716249 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
27716277 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
27716305 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
27716333 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
27716361 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
27716389 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
27716417 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
27716445 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
27716473 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
27716501 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
27716529 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
27716557 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
27716585 TAGGGGTAT
1 TAGGGGTAT
27716594 TCTAGTACAT
Statistics
Matches: 819, Mismatches: 1, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
27 1 0.00
28 818 1.00
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.36
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:27717314 original size:266 final size:266
Alignment explanation
Indices: 27716840--27717329 Score: 908
Period size: 266 Copynumber: 1.8 Consensus size: 266
27716830 CCCAAAATAC
* *
27716840 CGGCTTTTCGGCTTTTGCCGATCTAGCCTATGAAAGGGTGTCAGTTACACACCTGTTTTTGGGAT
1 CGGCTTTTCGACTTTTACCGATCTAGCCTATGAAAGGGTGTCAGTTACACACCTGTTTTTGGGAT
* * *
27716905 TTCCTCGACGAGATCTACACACGAATTTCCTACAATCGAATCACTTAATAATACTCCAAATATCG
66 TTCCTCGACGAGATCTACACACGAACTGCCTACAATCGAATCAATTAATAATACTCCAAATATCG
27716970 AAATAAAATTGAGTATATAGTCCCTTACCACATTCGGCCAAACATGCCTAAAACCATTATTGCTC
131 AAATAAAATTGAGTATATAGTCCCTTACCACATTCGGCCAAACATGCCTAAAACCATTATTGCTC
27717035 TTACCTTACTGCCAAAAGATGGTTAACTCTGCACACTCGCAAGTGCCCAAAATATCGGCTTTTCG
196 TTACCTTACTGCCAAAAGATGGTTAACTCTGCACACTCGCAAGTGCCCAAAATATCGGCTTTTCG
27717100 GTATTT
261 GTATTT
27717106 CGGCTTTTCGACTTTTACCGATCTAGCCTATGAAAGGGTGTCAGTTACACACCTGTTTTTGGGAT
1 CGGCTTTTCGACTTTTACCGATCTAGCCTATGAAAGGGTGTCAGTTACACACCTGTTTTTGGGAT
* *
27717171 TTCCTCGATGAGATCTACACACGAACTGCCTACAATCGAATCAATTAATATTACTCCAAATATCG
66 TTCCTCGACGAGATCTACACACGAACTGCCTACAATCGAATCAATTAATAATACTCCAAATATCG
*
27717236 AAATAAAATTGAGTATATAGTCCCTTACCACATTCGGCCAAACATGCCTAAAACCCTTATTGCTC
131 AAATAAAATTGAGTATATAGTCCCTTACCACATTCGGCCAAACATGCCTAAAACCATTATTGCTC
27717301 TTACCTTACTGCCAAAAGATGGTTAACTC
196 TTACCTTACTGCCAAAAGATGGTTAACTC
27717330 CAAAGATCCG
Statistics
Matches: 216, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
266 216 1.00
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (266 bp):
CGGCTTTTCGACTTTTACCGATCTAGCCTATGAAAGGGTGTCAGTTACACACCTGTTTTTGGGAT
TTCCTCGACGAGATCTACACACGAACTGCCTACAATCGAATCAATTAATAATACTCCAAATATCG
AAATAAAATTGAGTATATAGTCCCTTACCACATTCGGCCAAACATGCCTAAAACCATTATTGCTC
TTACCTTACTGCCAAAAGATGGTTAACTCTGCACACTCGCAAGTGCCCAAAATATCGGCTTTTCG
GTATTT
Found at i:27718718 original size:56 final size:56
Alignment explanation
Indices: 27718655--27718775 Score: 215
Period size: 56 Copynumber: 2.2 Consensus size: 56
27718645 CATGGCGTCG
*
27718655 ATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCCA
1 ATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGCCATCGATATGTGATTCCA
**
27718711 ATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGCCATCGATATGTGATTCTG
1 ATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGCCATCGATATGTGATTCCA
27718767 ATATATGTG
1 ATATATGTG
27718776 ATTACATGTA
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (56 bp):
ATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGCCATCGATATGTGATTCCA
Found at i:27721607 original size:62 final size:62
Alignment explanation
Indices: 27721510--27721629 Score: 222
Period size: 62 Copynumber: 1.9 Consensus size: 62
27721500 CTGTACAGGT
27721510 AGATATCCAAGTCGTAATGCACAAAGGTCAGTGTAGTCGATCCCTGTAACATGGGAGAATTG
1 AGATATCCAAGTCGTAATGCACAAAGGTCAGTGTAGTCGATCCCTGTAACATGGGAGAATTG
* *
27721572 AGATATCCAAGTTGTAATGCGCAAAGGTCAGTGTAGTCGATCCCTGTAACATGGGAGA
1 AGATATCCAAGTCGTAATGCACAAAGGTCAGTGTAGTCGATCCCTGTAACATGGGAGA
27721630 CTTGGACTAA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 56 1.00
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.24
Consensus pattern (62 bp):
AGATATCCAAGTCGTAATGCACAAAGGTCAGTGTAGTCGATCCCTGTAACATGGGAGAATTG
Found at i:27726492 original size:40 final size:40
Alignment explanation
Indices: 27726412--27726632 Score: 288
Period size: 40 Copynumber: 5.5 Consensus size: 40
27726402 ATGATGTCCA
* * * *
27726412 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCG
* * *
27726452 GACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTCCG
1 GGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
*
27726492 GGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
*
27726531 GGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
*
27726571 GGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCG
*
27726611 GGCTATGTCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTG
27726633 AACGAGNNNN
Statistics
Matches: 161, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
39 34 0.21
40 117 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
Found at i:27732644 original size:47 final size:47
Alignment explanation
Indices: 27732581--27732685 Score: 192
Period size: 47 Copynumber: 2.2 Consensus size: 47
27732571 CCCTTCGGGA
* *
27732581 CTTATCACATTTATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
27732628 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
27732675 CTTATCACATA
1 CTTATCACATA
27732686 ATTAATACTA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 56 1.00
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
Found at i:27733828 original size:53 final size:53
Alignment explanation
Indices: 27733748--27733853 Score: 194
Period size: 53 Copynumber: 2.0 Consensus size: 53
27733738 CTACTTTCTC
*
27733748 TTTCCCTTATCCGAAATTTGTGCCCCTTTTTGTCCTTGAGCTTAATTAAACAA
1 TTTCCCTTATCCGAAATTTGTGCCCCTTTTTGCCCTTGAGCTTAATTAAACAA
*
27733801 TTTCCCTTTTCCGAAATTTGTGCCCCTTTTTGCCCTTGAGCTTAATTAAACAA
1 TTTCCCTTATCCGAAATTTGTGCCCCTTTTTGCCCTTGAGCTTAATTAAACAA
27733854 ATTCAACTTA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.22, C:0.25, G:0.11, T:0.42
Consensus pattern (53 bp):
TTTCCCTTATCCGAAATTTGTGCCCCTTTTTGCCCTTGAGCTTAATTAAACAA
Found at i:27742081 original size:23 final size:24
Alignment explanation
Indices: 27742048--27742170 Score: 102
Period size: 23 Copynumber: 5.4 Consensus size: 24
27742038 AGCTGATGAA
27742048 CAGTAAGCTCTAATGAGCTGAAAT
1 CAGTAAGCTCTAATGAGCTGAAAT
*
27742072 GA-TAAGCTCT-ATCGAGCTG--AT
1 CAGTAAGCTCTAAT-GAGCTGAAAT
*
27742093 CAGTAAGCTCTATTGAGCTG-AA-
1 CAGTAAGCTCTAATGAGCTGAAAT
* * *
27742115 CAGTAAGTTC-ATACGAGTTGAAA-
1 CAGTAAGCTCTA-ATGAGCTGAAAT
*
27742138 CAGTAAGCTCCAATGAGCTGAAAAT
1 CAGTAAGCTCTAATGAGCTG-AAAT
27742163 -AGTAAGCT
1 CAGTAAGCT
27742171 TTTACGAGCT
Statistics
Matches: 80, Mismatches: 10, Indels: 18
0.74 0.09 0.17
Matches are distributed among these distances:
21 4 0.05
22 30 0.38
23 33 0.41
24 13 0.16
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (24 bp):
CAGTAAGCTCTAATGAGCTGAAAT
Found at i:27742101 original size:45 final size:44
Alignment explanation
Indices: 27742037--27742160 Score: 135
Period size: 45 Copynumber: 2.7 Consensus size: 44
27742027 AGCTCCTCCT
27742037 GAGCTGATGAACAGTAAGCTCTAATGAGCTGAAATGATAAGCTC-TATC
1 GAGCTGA--AACAGTAAGCTCTAATGAGCTGAAA-G-TAAGCTCATA-C
* * *
27742085 GAGCTG-ATCAGTAAGCTCTATTGAGCTGAACAGTAAGTTCATAC
1 GAGCTGAAACAGTAAGCTCTAATGAGCTGAA-AGTAAGCTCATAC
* *
27742129 GAGTTGAAACAGTAAGCTCCAATGAGCTGAAA
1 GAGCTGAAACAGTAAGCTCTAATGAGCTGAAA
27742161 ATAGTAAGCT
Statistics
Matches: 66, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
44 13 0.20
45 46 0.70
46 1 0.02
48 6 0.09
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.24
Consensus pattern (44 bp):
GAGCTGAAACAGTAAGCTCTAATGAGCTGAAAGTAAGCTCATAC
Found at i:27742102 original size:22 final size:22
Alignment explanation
Indices: 27742044--27742147 Score: 106
Period size: 22 Copynumber: 4.6 Consensus size: 22
27742034 CCTGAGCTGA
27742044 TGAACAGTAAGCTCTAAT-GAGC
1 TGAACAGTAAGCTCT-ATCGAGC
27742066 TGAA-ATGATAAGCTCTATCGAGC
1 TGAACA-G-TAAGCTCTATCGAGC
* *
27742089 TGATCAGTAAGCTCTATTGAGC
1 TGAACAGTAAGCTCTATCGAGC
* *
27742111 TGAACAGTAAGTTC-ATACGAGT
1 TGAACAGTAAGCTCTAT-CGAGC
27742133 TGAAACAGTAAGCTC
1 TG-AACAGTAAGCTC
27742148 CAATGAGCTG
Statistics
Matches: 69, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
21 3 0.04
22 38 0.55
23 27 0.39
24 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (22 bp):
TGAACAGTAAGCTCTATCGAGC
Found at i:27747565 original size:43 final size:43
Alignment explanation
Indices: 27747443--27747587 Score: 136
Period size: 43 Copynumber: 3.4 Consensus size: 43
27747433 TAAGACCACA
* * * *
27747443 TCTGGGACGTTGGCATCGACT-TATGATTTACGTTTAAGACCATG
1 TCTGGGACGTTGGCATCGA-TATTTGA-TTACATGTAAGACCCTG
* * * * * *
27747487 TCTAGGACATCGACATC-ATATTTTATTTCATGTAAGACCCTG
1 TCTGGGACGTTGGCATCGATATTTGATTACATGTAAGACCCTG
27747529 TCTGGGACAG-TGGCATCGATATTTGATTACATGTAAGACCAC-G
1 TCTGGGAC-GTTGGCATCGATATTTGATTACATGTAAGACC-CTG
27747572 TCTGGGACGTTGGCAT
1 TCTGGGACGTTGGCAT
27747588 TGTATGAGTT
Statistics
Matches: 80, Mismatches: 16, Indels: 11
0.75 0.15 0.10
Matches are distributed among these distances:
42 27 0.34
43 39 0.49
44 14 0.17
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.32
Consensus pattern (43 bp):
TCTGGGACGTTGGCATCGATATTTGATTACATGTAAGACCCTG
Found at i:27758747 original size:50 final size:50
Alignment explanation
Indices: 27758630--27758771 Score: 180
Period size: 50 Copynumber: 2.9 Consensus size: 50
27758620 CAAAGCTATT
* * * * **
27758630 TGATACGCATAGTACCCTGCACTTAGTACTGCACATGCGACC-AATTATC
1 TGATACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATC
* *
27758679 -CAGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATC
1 TGA-TACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATC
*
27758729 TGATACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCT
1 TGATACACATAGTAGCCTGCACTTAGTACTACACATGTGACCT
27758772 CACAATAGAT
Statistics
Matches: 79, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
48 1 0.01
49 34 0.43
50 43 0.54
51 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (50 bp):
TGATACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATC
Found at i:27765291 original size:40 final size:39
Alignment explanation
Indices: 27765227--27765399 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 39
27765217 AACCCACGTA
*
27765227 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTC-GGACTTAGCCCGGATATAGCAACTCGCACAAATG
27765266 CCTTCAGGACTTAGCCCGGATATAGCAACTCGCACAAATG
1 CCTTC-GGACTTAGCCCGGATATAGCAACTCGCACAAATG
* ** * *
27765306 CCTTTGGGACTTAGTTCGGATATAGTAACTCACACAAATG
1 CC-TTCGGACTTAGCCCGGATATAGCAACTCGCACAAATG
* *
27765346 CCTTCGGAACTTAGCCCGGATATAGTAACTCGTACAAATG
1 CCTTCGG-ACTTAGCCCGGATATAGCAACTCGCACAAATG
27765386 CCTTCGGATCTTAG
1 CCTTCGGA-CTTAG
27765400 TTCGGTTATC
Statistics
Matches: 118, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
39 17 0.14
40 99 0.84
41 2 0.02
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.25
Consensus pattern (39 bp):
CCTTCGGACTTAGCCCGGATATAGCAACTCGCACAAATG
Found at i:27765376 original size:80 final size:80
Alignment explanation
Indices: 27765242--27765404 Score: 249
Period size: 80 Copynumber: 2.0 Consensus size: 80
27765232 GGGATTTAGC
*
27765242 CGGATATAGCAACTCGCACAAATGCCTTCAGGACTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CGGATATAGCAACTCACACAAATGCCTTCAGGACTTAGCCCGGATATAGCAACTCGCACAAATGC
*
27765307 CTTTGGGA-CTTAGTT
66 C-TTCGGATCTTAGTT
* * *
27765322 CGGATATAGTAACTCACACAAATGCCTTC-GGAACTTAGCCCGGATATAGTAACTCGTACAAATG
1 CGGATATAGCAACTCACACAAATGCCTTCAGG-ACTTAGCCCGGATATAGCAACTCGCACAAATG
27765386 CCTTCGGATCTTAGTT
65 CCTTCGGATCTTAGTT
27765402 CGG
1 CGG
27765405 TTATCATCCG
Statistics
Matches: 76, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
79 7 0.09
80 69 0.91
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (80 bp):
CGGATATAGCAACTCACACAAATGCCTTCAGGACTTAGCCCGGATATAGCAACTCGCACAAATGC
CTTCGGATCTTAGTT
Found at i:27772736 original size:43 final size:43
Alignment explanation
Indices: 27772688--27772773 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 43
27772678 ACAGAGCTTC
* *
27772688 ACATCCTCATTGAAGATCCAGTCAAATCACTCGAGGTGTTTAA
1 ACATCCTCATTAAAGATCCACTCAAATCACTCGAGGTGTTTAA
*
27772731 ACATCCTTATTAAAGATCCACTCAAATCACTCGAGGTGTTTAA
1 ACATCCTCATTAAAGATCCACTCAAATCACTCGAGGTGTTTAA
27772774 GGAAAATAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (43 bp):
ACATCCTCATTAAAGATCCACTCAAATCACTCGAGGTGTTTAA
Found at i:27779066 original size:43 final size:43
Alignment explanation
Indices: 27779005--27779152 Score: 156
Period size: 43 Copynumber: 3.4 Consensus size: 43
27778995 CAATGTCATA
* * ** * **
27779005 TCCCAGATATGGTCTTACATGTTATCAT-ATATTGATGCCTCTG
1 TCCCAGACATGGTCTTACACGAAATCATAATA-CGATGCCAATG
*
27779048 TCCCAGACAGGGTCTTACACGAAATCATAATACGATGCCAATG
1 TCCCAGACATGGTCTTACACGAAATCATAATACGATGCCAATG
* *
27779091 TCCCAGACATGGTCTTACAC-ATAATCACAATACAATGCCAATG
1 TCCCAGACATGGTCTTACACGA-AATCATAATACGATGCCAATG
* *
27779134 TTCCAGACTTGGTCTTACA
1 TCCCAGACATGGTCTTACA
27779153 TGTAATCACA
Statistics
Matches: 90, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
42 1 0.01
43 86 0.96
44 3 0.03
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACACGAAATCATAATACGATGCCAATG
Found at i:27779159 original size:43 final size:43
Alignment explanation
Indices: 27779046--27779162 Score: 162
Period size: 43 Copynumber: 2.7 Consensus size: 43
27779036 TTGATGCCTC
* * * *
27779046 TGTCCCAGACAGGGTCTTACACGAAATCATAATACGATGCCAA
1 TGTCCCAGACATGGTCTTACACGTAATCACAATACAATGCCAA
*
27779089 TGTCCCAGACATGGTCTTACACATAATCACAATACAATGCCAA
1 TGTCCCAGACATGGTCTTACACGTAATCACAATACAATGCCAA
* * *
27779132 TGTTCCAGACTTGGTCTTACATGTAATCACA
1 TGTCCCAGACATGGTCTTACACGTAATCACA
27779163 TCTCGATAAC
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 65 1.00
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (43 bp):
TGTCCCAGACATGGTCTTACACGTAATCACAATACAATGCCAA
Found at i:27780775 original size:29 final size:29
Alignment explanation
Indices: 27780718--27780775 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
27780708 ACTAAATTGG
27780718 AAATTGAAATAATAAATTAATTAAAAGAT
1 AAATTGAAATAATAAATTAATTAAAAGAT
*
27780747 AAATTGAAATAATTAATTAATTAAAAGAT
1 AAATTGAAATAATAAATTAATTAAAAGAT
27780776 GATAAAAAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (29 bp):
AAATTGAAATAATAAATTAATTAAAAGAT
Found at i:27794486 original size:29 final size:28
Alignment explanation
Indices: 27794450--27794527 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
27794440 TCATGAGATT
27794450 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
27794480 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
27794507 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
27794528 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:27799331 original size:18 final size:18
Alignment explanation
Indices: 27799308--27799343 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
27799298 TTAATGAAAT
27799308 TTTCACACAATTATTCTA
1 TTTCACACAATTATTCTA
27799326 TTTCACACAATTATTCTA
1 TTTCACACAATTATTCTA
27799344 CCATACTGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.22, G:0.00, T:0.44
Consensus pattern (18 bp):
TTTCACACAATTATTCTA
Found at i:27812681 original size:44 final size:41
Alignment explanation
Indices: 27812631--27812785 Score: 132
Period size: 43 Copynumber: 3.6 Consensus size: 41
27812621 TGATTCTGTG
* *
27812631 TAAGACCACATCTGGGACATTGGCATCGACTTCTGTTTTACGTA
1 TAAGACCACGTCTGGGACATTGGCATCGA-TT-TGATTT-CGTA
* * * *
27812675 TAAGACCATGTCTGGGACATCGACATCGTATTTGATTTCGTG
1 TAAGACCACGTCTGGGACATTGGCATCG-ATTTGATTTCGTA
* * * *
27812717 TAAGACC-CTGTCTGGGACAGTGGCATCGATGTTTGATTACATG
1 TAAGACCAC-GTCTGGGACATTGGCATCGA--TTTGATTTCGTA
* *
27812760 TAAGATCACGTCTAGGACATTGGCAT
1 TAAGACCACGTCTGGGACATTGGCAT
27812786 TGTAAATGTT
Statistics
Matches: 91, Mismatches: 15, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
41 1 0.01
42 26 0.29
43 36 0.40
44 27 0.30
45 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (41 bp):
TAAGACCACGTCTGGGACATTGGCATCGATTTGATTTCGTA
Found at i:27812744 original size:42 final size:41
Alignment explanation
Indices: 27812628--27812764 Score: 116
Period size: 42 Copynumber: 3.2 Consensus size: 41
27812618 ATGTGATTCT
* *
27812628 GTGTAAGACCAC-ATCTGGGACATTGGCATCG-ACTTCTGTTTTAC
1 GTGTAAGACC-CTGTCTGGGACA-TGGCATCGTA-TT-TGATTT-C
* * *
27812672 GTATAAGACCATGTCTGGGACATCGACATCGTATTTGATTTC
1 GTGTAAGACCCTGTCTGGGACAT-GGCATCGTATTTGATTTC
* *
27812714 GTGTAAGACCCTGTCTGGGACAGTGGCATCGATGTTTGATTAC
1 GTGTAAGACCCTGTCTGGGACA-TGGCATCG-TATTTGATTTC
*
27812757 ATGTAAGA
1 GTGTAAGA
27812765 TCACGTCTAG
Statistics
Matches: 77, Mismatches: 11, Indels: 11
0.78 0.11 0.11
Matches are distributed among these distances:
42 27 0.35
43 23 0.30
44 26 0.34
45 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (41 bp):
GTGTAAGACCCTGTCTGGGACATGGCATCGTATTTGATTTC
Found at i:27818083 original size:43 final size:43
Alignment explanation
Indices: 27818019--27818184 Score: 133
Period size: 43 Copynumber: 3.9 Consensus size: 43
27818009 GGATTCCGAG
* *
27818019 ATATGA-TATCATGTAAAACCATGGCTGGGACATTGGCATCGAT
1 ATATGATTA-CATGTAAGACCATGTCTGGGACATTGGCATCGAT
* * * *
27818062 CTGA-GATTACGTGTAAGACCATATCTGGGACATTGGTATCG-T
1 AT-ATGATTACATGTAAGACCATGTCTGGGACATTGGCATCGAT
* * * *
27818104 ATATGATTTCATATAAGACCCTGTCTGGGACAGTGGCATCGAT
1 ATATGATTACATGTAAGACCATGTCTGGGACATTGGCATCGAT
* * * * * * *
27818147 ATTTAATAACATGCAATACCATATCTGGGATA-TGGCAT
1 ATATGATTACATGTAAGACCATGTCTGGGACATTGGCAT
27818185 TGTATGAGTT
Statistics
Matches: 95, Mismatches: 24, Indels: 9
0.74 0.19 0.07
Matches are distributed among these distances:
41 1 0.01
42 38 0.40
43 53 0.56
44 3 0.03
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (43 bp):
ATATGATTACATGTAAGACCATGTCTGGGACATTGGCATCGAT
Found at i:27822896 original size:40 final size:40
Alignment explanation
Indices: 27822724--27822889 Score: 246
Period size: 40 Copynumber: 4.2 Consensus size: 40
27822714 AACCCAAGTA
* * * *
27822724 CCTTCGGAATTTAG-CCGGATATAG-CAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
27822763 CCTTCGGGACTTAGCCCGGACATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
27822803 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
27822843 CCTTCGGGACTTAGCCCGGATATAATCACTAGAACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
27822883 CCTTCGG
1 CCTTCGG
27822890 ATCTTAGTCC
Statistics
Matches: 117, Mismatches: 8, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
39 12 0.10
40 104 0.89
41 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:27824640 original size:28 final size:28
Alignment explanation
Indices: 27824600--27824653 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
27824590 CACGTACTAA
*
27824600 TACTGTATTGGGCTTAA-GCCCACACTGT
1 TACTGTATAGGGC-TAAGGCCCACACTGT
27824628 TACTGTATAGGGCTAAGGCCCACACT
1 TACTGTATAGGGCTAAGGCCCACACT
27824654 ATACAAATAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 3 0.12
28 21 0.88
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (28 bp):
TACTGTATAGGGCTAAGGCCCACACTGT
Found at i:27840716 original size:30 final size:29
Alignment explanation
Indices: 27840660--27840718 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
27840650 GAAAACCAGA
27840660 ATAAAGAAATCCAAGACATAGGAATCCAAG
1 ATAAAGAAATCCAAGACATA-GAATCCAAG
*
27840690 ATAAAGATATCCAAGGTACATA-AATCCAA
1 ATAAAGAAATCCAA-G-ACATAGAATCCAA
27840719 AATACCATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 20 0.77
31 1 0.04
32 5 0.19
ACGTcount: A:0.53, C:0.17, G:0.14, T:0.17
Consensus pattern (29 bp):
ATAAAGAAATCCAAGACATAGAATCCAAG
Found at i:27853356 original size:79 final size:81
Alignment explanation
Indices: 27853188--27853372 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
27853178 GCTACTCGTT
* *
27853188 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* *
27853252 GATTTAGTAACTCGAAC
65 GATATAGTAACTAGAAC
* **
27853269 CAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
* * *
27853331 GATATGGTCACTTAGCA-
65 GATATAGTAAC-TAGAAC
27853348 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
27853373 CATCATTCGA
Statistics
Matches: 89, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 24 0.27
81 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTAGAAC
Found at i:27853372 original size:40 final size:40
Alignment explanation
Indices: 27853169--27853372 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
27853159 CGGAATTTAA
** *
27853169 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
27853209 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
27853249 CCGGATTTAGTAACTCGAACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
27853288 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
27853328 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
27853368 CCGGA
1 CCGGA
27853373 CATCATTCGA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 93 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:27858529 original size:56 final size:54
Alignment explanation
Indices: 27858411--27858566 Score: 177
Period size: 56 Copynumber: 2.8 Consensus size: 54
27858401 ATAACATAGC
* * * *
27858411 ACGCCTCTCAACAGGGCTACATAAGAGCACCCGGACCTAGCATGCATCACATAACA
1 ACGCCTCTCAACAGGGCTACAT-A-AGCTCCAGGACCTAGCATGTACCACATAACA
* *
27858467 ACGCCTCTCAACAGGGCTACATAAGCTCCAGGACCTAGCGTGTACCACATAATTA
1 ACGCCTCTCAACAGGGCTACATAAGCTCCAGGACCTAGCATGTACCACATAA-CA
* ** * *
27858522 CATGCCTCTCAATGGGGCTACACAAGCTCCTGGACCTAGCATGTA
1 -ACGCCTCTCAACAGGGCTACATAAGCTCCAGGACCTAGCATGTA
27858567 TCATGTCATC
Statistics
Matches: 86, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
54 24 0.28
55 2 0.02
56 60 0.70
ACGTcount: A:0.30, C:0.32, G:0.19, T:0.19
Consensus pattern (54 bp):
ACGCCTCTCAACAGGGCTACATAAGCTCCAGGACCTAGCATGTACCACATAACA
Found at i:27874471 original size:21 final size:24
Alignment explanation
Indices: 27874427--27874477 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
27874417 AAATGGATTT
*
27874427 GTATGATTTGAGTTCATGAAATTG-
1 GTATGATTTGAG-TCATAAAATTGA
27874451 GTATGATTTGA-T-ATAAAATTGA
1 GTATGATTTGAGTCATAAAATTGA
27874473 GTATG
1 GTATG
27874478 GAATTGATTG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 8 0.32
22 6 0.24
24 11 0.44
ACGTcount: A:0.33, C:0.02, G:0.24, T:0.41
Consensus pattern (24 bp):
GTATGATTTGAGTCATAAAATTGA
Found at i:27881258 original size:11 final size:11
Alignment explanation
Indices: 27881238--27881269 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
27881228 CACAAGCTCT
27881238 ATCCAGCTCAA
1 ATCCAGCTCAA
*
27881249 ATCTAGCTCAA
1 ATCCAGCTCAA
27881260 ATCCAGCTCA
1 ATCCAGCTCA
27881270 TTCGAGCGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.34, C:0.34, G:0.09, T:0.22
Consensus pattern (11 bp):
ATCCAGCTCAA
Found at i:27881408 original size:30 final size:31
Alignment explanation
Indices: 27881332--27881420 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 31
27881322 TTCAACTCAC
* *
27881332 GAGCTAAACCTTAGCTCAACTTCAGCT-TAG
1 GAGCTAAACCTTAGCTCAACTTTAGCTCAAG
* * *
27881362 GAGTTTAACCTCAGCTCAACTTTAGCTCAAG
1 GAGCTAAACCTTAGCTCAACTTTAGCTCAAG
* *
27881393 G-GCTAAAGCTTAGCTC-ATTTTAGCTCAA
1 GAGCTAAACCTTAGCTCAACTTTAGCTCAA
27881421 ACCCGATTTT
Statistics
Matches: 48, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
29 11 0.23
30 34 0.71
31 3 0.06
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (31 bp):
GAGCTAAACCTTAGCTCAACTTTAGCTCAAG
Found at i:27884019 original size:15 final size:14
Alignment explanation
Indices: 27883988--27884026 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
27883978 ACGAGAAAAC
27883988 AAAGAAAAGAAAAGAA
1 AAAGAAAAG--AAGAA
27884004 AAAGCAAAAGAAGAA
1 AAAG-AAAAGAAGAA
27884019 AAAGAAAA
1 AAAGAAAA
27884027 CGAAATAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 4 0.18
15 9 0.41
16 4 0.18
17 5 0.23
ACGTcount: A:0.79, C:0.03, G:0.18, T:0.00
Consensus pattern (14 bp):
AAAGAAAAGAAGAA
Found at i:27884196 original size:18 final size:19
Alignment explanation
Indices: 27884160--27884198 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
27884150 TTTGAGAGAG
*
27884160 AAAAAGAATGTGAACAAGA
1 AAAAAGAATGTGAAAAAGA
*
27884179 AAAAAGAGTG-GAAAAAGA
1 AAAAAGAATGTGAAAAAGA
27884197 AA
1 AA
27884199 TTGAGATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.67, C:0.03, G:0.23, T:0.08
Consensus pattern (19 bp):
AAAAAGAATGTGAAAAAGA
Found at i:27891137 original size:47 final size:47
Alignment explanation
Indices: 27891059--27891469 Score: 750
Period size: 47 Copynumber: 8.7 Consensus size: 47
27891049 CCCTTCGGGA
* * * * * *
27891059 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
27891106 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27891153 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27891200 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27891247 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27891294 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27891341 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27891388 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27891435 CTTATCACATATATACACTTTCACATTCATCACAT
1 CTTATCACATATATACACTTTCACATTCATCACAT
27891470 AGAATCCTAA
Statistics
Matches: 354, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 354 1.00
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:27893100 original size:13 final size:13
Alignment explanation
Indices: 27893082--27893106 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27893072 TACTAAATTT
27893082 TCATGGATTCAAA
1 TCATGGATTCAAA
27893095 TCATGGATTCAA
1 TCATGGATTCAA
27893107 TATACCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAA
Found at i:27894396 original size:23 final size:23
Alignment explanation
Indices: 27894364--27894423 Score: 86
Period size: 23 Copynumber: 2.6 Consensus size: 23
27894354 GGTTATGCCT
*
27894364 CACACGCCCGTGTGGAGGCAAAG
1 CACACACCCGTGTGGAGGCAAAG
*
27894387 CACACACCCGTATGGAGGCAAAG
1 CACACACCCGTGTGGAGGCAAAG
27894410 CACA-AGCCCGTGTG
1 CACACA-CCCGTGTG
27894424 CTTAGGGACA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
22 1 0.03
23 32 0.97
ACGTcount: A:0.28, C:0.32, G:0.30, T:0.10
Consensus pattern (23 bp):
CACACACCCGTGTGGAGGCAAAG
Found at i:27903526 original size:7 final size:7
Alignment explanation
Indices: 27903516--27903550 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
27903506 TTTTTAAAGG
27903516 TTTTTAA
1 TTTTTAA
27903523 TTTTTAA
1 TTTTTAA
27903530 TTTTTAA
1 TTTTTAA
27903537 TTTTTAA
1 TTTTTAA
27903544 TTTTTAA
1 TTTTTAA
27903551 GAATTAAGAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTTTAA
Found at i:27903557 original size:21 final size:21
Alignment explanation
Indices: 27903516--27903557 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
27903506 TTTTTAAAGG
***
27903516 TTTTTAATTTTTAATTTTTAA
1 TTTTTAATTTTTAAGAATTAA
27903537 TTTTTAATTTTTAAGAATTAA
1 TTTTTAATTTTTAAGAATTAA
27903558 GACTAAATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (21 bp):
TTTTTAATTTTTAAGAATTAA
Found at i:27910021 original size:69 final size:69
Alignment explanation
Indices: 27909870--27910092 Score: 189
Period size: 69 Copynumber: 3.2 Consensus size: 69
27909860 AATTTATATG
** * * * * *
27909870 CGAACCTTGGTTTTACAACTGGGAGCTTTGCTCTTGTTAACTGTGTTGGAGGTCGAGGTTCTTCA
1 CGAACCTTCATTTTACAACTGGGACCTTTGCTCTCGCTAACTGTGGTGGAGGTCGAGGCTCTTCA
* *
27909935 CTTG
66 CCTA
* * * * **
27909939 CGAACTTTGATTTTACAGCTGGGACCTTTGCTCTCGCTAACTGTGGTGGAGGTCGCGGCTCTTTG
1 CGAACCTTCATTTTACAACTGGGACCTTTGCTCTCGCTAACTGTGGTGGAGGTCGAGGCTCTTCA
27910004 CCTA
66 CCTA
* * ** * ** * **
27910008 CGATCCTTCATTTTACAACTAGGAGTTTTGCTATTACTAA-TGTGTTGGAGGTC-ACGATTCTTC
1 CGAACCTTCATTTTACAACTGGGACCTTTGCTCTCGCTAACTGTGGTGGAGGTCGA-GGCTCTTC
27910071 ACCTA
65 ACCTA
*
27910076 CGAACCTTAATTTTACA
1 CGAACCTTCATTTTACA
27910093 GATAATAATT
Statistics
Matches: 122, Mismatches: 31, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
68 36 0.30
69 86 0.70
ACGTcount: A:0.19, C:0.22, G:0.23, T:0.36
Consensus pattern (69 bp):
CGAACCTTCATTTTACAACTGGGACCTTTGCTCTCGCTAACTGTGGTGGAGGTCGAGGCTCTTCA
CCTA
Found at i:27916015 original size:15 final size:15
Alignment explanation
Indices: 27915989--27916030 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
27915979 TTTCATTTTT
*
27915989 TTTCACTTTATTATTA
1 TTTCATTTTATTA-TA
27916005 TTTC-TTTTATTATA
1 TTTCATTTTATTATA
27916019 TTTCATTTTATT
1 TTTCATTTTATT
27916031 TCTTCTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 6 0.25
15 14 0.58
16 4 0.17
ACGTcount: A:0.21, C:0.10, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTCATTTTATTATA
Found at i:27919604 original size:21 final size:21
Alignment explanation
Indices: 27919580--27919621 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
27919570 GATACCTGGT
27919580 AAAATGTATCAATAATTTTTG
1 AAAATGTATCAATAATTTTTG
* *
27919601 AAAATGTATTAATACTTTTTG
1 AAAATGTATCAATAATTTTTG
27919622 TGTTTGTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.05, G:0.10, T:0.45
Consensus pattern (21 bp):
AAAATGTATCAATAATTTTTG
Found at i:27919854 original size:20 final size:20
Alignment explanation
Indices: 27919829--27919871 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
27919819 GGGAGTAGTT
* *
27919829 TTTCAATTGATTTAAAAATG
1 TTTCAATTGAGTTAAAAAAG
27919849 TTTCAATTGAGTTAAAAAAG
1 TTTCAATTGAGTTAAAAAAG
27919869 TTT
1 TTT
27919872 AAACTGTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.40, C:0.05, G:0.12, T:0.44
Consensus pattern (20 bp):
TTTCAATTGAGTTAAAAAAG
Found at i:27920167 original size:27 final size:27
Alignment explanation
Indices: 27920136--27920205 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
27920126 TAAAGTTCAA
* *
27920136 TTTGAATCAAAGACTT-GATTTTATGAT
1 TTTGAAACAAAGACTTGGA-TTTATAAT
*
27920163 TTTGAAACAAAAACTTGGATTTATAAT
1 TTTGAAACAAAGACTTGGATTTATAAT
27920190 TTTGAAACAAAGACTT
1 TTTGAAACAAAGACTT
27920206 AAGTGTGAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
27 36 0.95
28 2 0.05
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.39
Consensus pattern (27 bp):
TTTGAAACAAAGACTTGGATTTATAAT
Found at i:27925178 original size:43 final size:43
Alignment explanation
Indices: 27925117--27925198 Score: 137
Period size: 43 Copynumber: 1.9 Consensus size: 43
27925107 CATGAATCGT
* *
27925117 ATCCATCATGAACTCAGACCACTGAACGAGCTCAGATGCTTGC
1 ATCCATAATGAACTCAGACCACTCAACGAGCTCAGATGCTTGC
*
27925160 ATCCATAATGAACTCAGACCTCTCAACGAGCTCAGATGC
1 ATCCATAATGAACTCAGACCACTCAACGAGCTCAGATGC
27925199 CACATATCTC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.21
Consensus pattern (43 bp):
ATCCATAATGAACTCAGACCACTCAACGAGCTCAGATGCTTGC
Found at i:27927664 original size:23 final size:23
Alignment explanation
Indices: 27927637--27927686 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
27927627 TTGTACATTC
27927637 CTTTTTTCTTCACTTCATTCTCT
1 CTTTTTTCTTCACTTCATTCTCT
27927660 CTTTTTTCTTCACTTCATTCTCT
1 CTTTTTTCTTCACTTCATTCTCT
27927683 CTTT
1 CTTT
27927687 CTCTTTGACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.08, C:0.30, G:0.00, T:0.62
Consensus pattern (23 bp):
CTTTTTTCTTCACTTCATTCTCT
Found at i:27930058 original size:43 final size:43
Alignment explanation
Indices: 27929902--27930079 Score: 157
Period size: 43 Copynumber: 4.2 Consensus size: 43
27929892 GATTACCGAG
* * *
27929902 ATGAGGTTACATGTAAGACTATGTCTGGGACATTGGCAT-TGT
1 ATGAGATTACATGTAAGACCATGTCTGGGACATTGGCATCAGT
* * ** *
27929944 ACTGTGATTACGTGTAAGACCATGTCTAAGACATTGGCATCATT
1 A-TGAGATTACATGTAAGACCATGTCTGGGACATTGGCATCAGT
* * * *
27929988 AT-ATGATTTCGTGTGAGACAATGTCTGGGACATTGGCATCAGT
1 ATGA-GATTACATGTAAGACCATGTCTGGGACATTGGCATCAGT
* * * * *
27930031 GTGAGATAACATGTAAGACCATATCTGGGATA-TGGCAT-TGT
1 ATGAGATTACATGTAAGACCATGTCTGGGACATTGGCATCAGT
27930072 ATGAGATT
1 ATGAGATT
27930080 TATGTGATAT
Statistics
Matches: 106, Mismatches: 26, Indels: 9
0.75 0.18 0.06
Matches are distributed among these distances:
41 8 0.08
42 7 0.07
43 88 0.83
44 3 0.03
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (43 bp):
ATGAGATTACATGTAAGACCATGTCTGGGACATTGGCATCAGT
Found at i:27930535 original size:33 final size:33
Alignment explanation
Indices: 27930496--27930587 Score: 112
Period size: 33 Copynumber: 2.8 Consensus size: 33
27930486 TAAGTTGCCG
27930496 AATAAGACCATAGCTAGGCTATGGCAATCAAAT
1 AATAAGACCATAGCTAGGCTATGGCAATCAAAT
* * * *
27930529 AATAAGACCATAGCTAGACTATGGAAATCGACT
1 AATAAGACCATAGCTAGGCTATGGCAATCAAAT
* * * *
27930562 AAAAAGACCATAACCAGGTTATGGCA
1 AATAAGACCATAGCTAGGCTATGGCA
27930588 CGTGAAAGAA
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 49 1.00
ACGTcount: A:0.43, C:0.18, G:0.18, T:0.20
Consensus pattern (33 bp):
AATAAGACCATAGCTAGGCTATGGCAATCAAAT
Found at i:27932192 original size:20 final size:20
Alignment explanation
Indices: 27932164--27932210 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
27932154 TACAATCATA
* *
27932164 TCCAATTCAAATGACCATTT
1 TCCATTTCAAATAACCATTT
*
27932184 TCCATTTCATATAACCATTT
1 TCCATTTCAAATAACCATTT
*
27932204 GCCATTT
1 TCCATTT
27932211 TGTATATCCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.26, G:0.04, T:0.40
Consensus pattern (20 bp):
TCCATTTCAAATAACCATTT
Found at i:27932216 original size:20 final size:20
Alignment explanation
Indices: 27932177--27932236 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
27932167 AATTCAAATG
*
27932177 ACCATTTTCCATTTCATATA
1 ACCATTTGCCATTTCATATA
**
27932197 ACCATTTGCCATTTTGTATA
1 ACCATTTGCCATTTCATATA
* *
27932217 TCCAATTGCCATTTCATATA
1 ACCATTTGCCATTTCATATA
27932237 TCTGATTTCT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.28, C:0.23, G:0.05, T:0.43
Consensus pattern (20 bp):
ACCATTTGCCATTTCATATA
Found at i:27938860 original size:22 final size:22
Alignment explanation
Indices: 27938807--27938860 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 22
27938797 TCCAATTTAA
*
27938807 ATAA-CAATTTTTCCATTTCAT
1 ATAATCAATTTTTCCATTCCAT
27938828 ATAATC-A-TTTTCCATTCCAT
1 ATAATCAATTTTTCCATTCCAT
27938848 AT-ATCCAATTTTT
1 ATAAT-CAATTTTT
27938861 GCATGATGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
19 2 0.07
20 15 0.54
21 6 0.21
22 5 0.18
ACGTcount: A:0.31, C:0.20, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAATCAATTTTTCCATTCCAT
Found at i:27944807 original size:23 final size:23
Alignment explanation
Indices: 27944777--27944824 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
27944767 ATTAGGTGTT
27944777 AAATTAGTAATGAAAATAGATCA
1 AAATTAGTAATGAAAATAGATCA
27944800 AAATTAGTAATGAAAATAGATCA
1 AAATTAGTAATGAAAATAGATCA
27944823 AA
1 AA
27944825 GATAGATGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.58, C:0.04, G:0.12, T:0.25
Consensus pattern (23 bp):
AAATTAGTAATGAAAATAGATCA
Found at i:27951443 original size:28 final size:27
Alignment explanation
Indices: 27951365--27951444 Score: 106
Period size: 27 Copynumber: 2.9 Consensus size: 27
27951355 TGGGGTGAAC
* *
27951365 AATAAAAAGAAAGCCTTGGTGGCAAAC
1 AATAAAAAGAAAGCCTTTGTGGCAAAA
* *
27951392 CATGAAAAGAAAGCCTTTGTGGCAAAA
1 AATAAAAAGAAAGCCTTTGTGGCAAAA
*
27951419 AATAAAAAGATTAGCCTTTGTGGCAA
1 AATAAAAAGA-AAGCCTTTGTGGCAA
27951445 TCATCTGAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
27 31 0.69
28 14 0.31
ACGTcount: A:0.45, C:0.14, G:0.21, T:0.20
Consensus pattern (27 bp):
AATAAAAAGAAAGCCTTTGTGGCAAAA
Found at i:27955121 original size:16 final size:16
Alignment explanation
Indices: 27955091--27955123 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
27955081 AGAGACCGAT
27955091 TGGACATATGTAATTA
1 TGGACATATGTAATTA
27955107 TGGATCATATG-AATTA
1 TGGA-CATATGTAATTA
27955123 T
1 T
27955124 AATTAAGTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.36, C:0.06, G:0.18, T:0.39
Consensus pattern (16 bp):
TGGACATATGTAATTA
Found at i:27970984 original size:20 final size:20
Alignment explanation
Indices: 27970946--27970993 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
27970936 TAAATTCTAA
* **
27970946 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
27970966 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
27970986 AAA-ATAAA
1 AAAGATAAA
27970994 ATCCTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:27971660 original size:4 final size:4
Alignment explanation
Indices: 27971653--27971681 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
27971643 TCTTTTTTGT
27971653 TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
27971682 GTATGTATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:27972617 original size:15 final size:15
Alignment explanation
Indices: 27972597--27972648 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
27972587 TTAATATTTG
27972597 AAAATAATAAATAAT
1 AAAATAATAAATAAT
27972612 AAAATAATAAGATAAAAT
1 AAAATAATAA-AT--AAT
*
27972630 AAATAAAATAAA-AAT
1 AAA-ATAATAAATAAT
27972645 AAAA
1 AAAA
27972649 ATTGGGTTGC
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
14 1 0.03
15 16 0.50
16 2 0.06
18 7 0.22
19 6 0.19
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (15 bp):
AAAATAATAAATAAT
Found at i:27972637 original size:22 final size:19
Alignment explanation
Indices: 27972605--27972648 Score: 61
Period size: 22 Copynumber: 2.2 Consensus size: 19
27972595 TGAAAATAAT
27972605 AAATAATAAAATAATAAGATA
1 AAATAATAAAATAA-AA-ATA
27972626 AAATAAATAAAATAAAAATA
1 AAAT-AATAAAATAAAAATA
27972646 AAA
1 AAA
27972649 ATTGGGTTGC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 6 0.27
21 6 0.27
22 10 0.45
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.20
Consensus pattern (19 bp):
AAATAATAAAATAAAAATA
Found at i:27972640 original size:14 final size:14
Alignment explanation
Indices: 27972609--27972647 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
27972599 AATAATAAAT
27972609 AATAAAAT-AATAA
1 AATAAAATAAATAA
*
27972622 GATAAAATAAATAA
1 AATAAAATAAATAA
27972636 AATAAAAATAAA
1 AAT-AAAATAAA
27972648 AATTGGGTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 7 0.32
14 7 0.32
15 8 0.36
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.21
Consensus pattern (14 bp):
AATAAAATAAATAA
Found at i:27980935 original size:25 final size:27
Alignment explanation
Indices: 27980898--27980950 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
27980888 TCAAACATGC
27980898 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
27980924 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
27980950 A
1 A
27980951 AAACTATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:27982463 original size:26 final size:26
Alignment explanation
Indices: 27982432--27982591 Score: 275
Period size: 26 Copynumber: 6.2 Consensus size: 26
27982422 TGAAATGCCC
*
27982432 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
27982458 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
27982484 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
27982510 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
27982536 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
27982562 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
27982588 ATCA
1 ATCA
27982592 ATTTGTATCA
Statistics
Matches: 125, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 125 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:27983728 original size:24 final size:24
Alignment explanation
Indices: 27983701--27983749 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
27983691 GTTTAGTCTC
*
27983701 GAACCTCTTCTAAGCATGTTTTAA
1 GAACCTCTTCCAAGCATGTTTTAA
27983725 GAACCTCTTCCAAGCATGTTTTAA
1 GAACCTCTTCCAAGCATGTTTTAA
27983749 G
1 G
27983750 GTCTCCTAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (24 bp):
GAACCTCTTCCAAGCATGTTTTAA
Found at i:27985432 original size:335 final size:332
Alignment explanation
Indices: 27984820--27985489 Score: 1180
Period size: 335 Copynumber: 2.0 Consensus size: 332
27984810 TTTATCCTCA
27984820 GAGGTATGTGTAACTGTATATTTTTAGATGAAATTCTTATCAAATAAGAACATTATTTAAATATA
1 GAGGTATGTGTAACTGTATATTTTTAGATGAAATTCTTATCAAATAAGAACATTATTTAAATATA
*
27984885 CTAATATATACTAAAGCATTGATGGGCTGTTCAGGTTATGATCGGCATTATTTTATTTTTTTATT
66 CT-AGATATACTAAAGCATTGATGGGCTGTTCAGGTTATGATCGGCATTATTTTATTTTTTTATT
*
27984950 TTTTTCTCTAGTATTTTATTACATTGTGTCGATAGAATGTCGGCGGTAAAATCTGTATGATGTTA
130 TTTTTCTCTAGTATTTTATTACATTGTGTCGATAGAATGTCGACGGTAAAATCTGTATGATGTTA
* * *
27985015 GTATTTTGTTTCTACTGGTTATTGTTCTGTTGAAAATACATGAAGATTATATTGCTTCTGTTATC
195 GTATTCTGTTTATACTGGTTATTGTCCTGTTGAAAATACATGAAGATTATATTGCTTCTGTTATC
*
27985080 GTTGATTCCAGTGCATATGAGTGATGCTTTACTTCTGGATTTCCTCTGAGACATCATCGAGATAT
260 GTTGATTCCAATGCATATGAGTGATGCTTTACTTCTGGATTTCCTCTGAGACATCATCGAG-TAT
27985145 TTACCATCT
324 TTACCATCT
*
27985154 GAGGTATGTGTAACTGTATATTTTTAGATGAAATTCTTATCATATAAGAACATTATTTAAATATA
1 GAGGTATGTGTAACTGTATATTTTTAGATGAAATTCTTATCAAATAAGAACATTATTTAAATATA
*
27985219 CT-GATATACTAAAGCATTGCTGGGCTGTTCAGGTTATGATCGGCATTATTTTATTTTACTTTTA
66 CTAGATATACTAAAGCATTGATGGGCTGTTCAGGTTATGATCGGCATTATTTTA-TTT--TTTTA
* *
27985283 TTTTTTTCTCTGGTATTTTATTACATTGTGTCGATAGAATGTCGATGGTAAAATCTGTATGATGT
128 TTTTTTTCTCTAGTATTTTATTACATTGTGTCGATAGAATGTCGACGGTAAAATCTGTATGATGT
* *
27985348 TAGTATTCTGTTTATATTGGTTATTGTCCTGTTGAAAATACATGAAGATTATATTGCTTTTGTTA
193 TAGTATTCTGTTTATACTGGTTATTGTCCTGTTGAAAATACATGAAGATTATATTGCTTCTGTTA
27985413 TCGTTGATTCCAATGCATATGAGTGATGCTTTACTTCTGGATTTCCTCTGAGACATCATCGAGTA
258 TCGTTGATTCCAATGCATATGAGTGATGCTTTACTTCTGGATTTCCTCTGAGACATCATCGAGTA
27985478 TTTACCATCT
323 TTTACCATCT
27985488 GA
1 GA
27985490 TATGGGGGCT
Statistics
Matches: 321, Mismatches: 12, Indels: 6
0.95 0.04 0.02
Matches are distributed among these distances:
332 49 0.15
333 3 0.01
334 80 0.25
335 189 0.59
ACGTcount: A:0.27, C:0.12, G:0.17, T:0.44
Consensus pattern (332 bp):
GAGGTATGTGTAACTGTATATTTTTAGATGAAATTCTTATCAAATAAGAACATTATTTAAATATA
CTAGATATACTAAAGCATTGATGGGCTGTTCAGGTTATGATCGGCATTATTTTATTTTTTTATTT
TTTTCTCTAGTATTTTATTACATTGTGTCGATAGAATGTCGACGGTAAAATCTGTATGATGTTAG
TATTCTGTTTATACTGGTTATTGTCCTGTTGAAAATACATGAAGATTATATTGCTTCTGTTATCG
TTGATTCCAATGCATATGAGTGATGCTTTACTTCTGGATTTCCTCTGAGACATCATCGAGTATTT
ACCATCT
Found at i:27989248 original size:43 final size:42
Alignment explanation
Indices: 27989134--27989253 Score: 143
Period size: 43 Copynumber: 2.8 Consensus size: 42
27989124 AGAGATTACA
** *
27989134 TGTAAGACCATGTCTGGGACATTGGCAT-TGTATTGGGATTATG
1 TGTAAGACCATGTCTGGGACATTGGCATCT-TA-TGCAATGATG
*
27989177 AGTAAGACCATGTCTGGGACATTGGCATCATTATGCAATGATG
1 TGTAAGACCATGTCTGGGACATTGGCATC-TTATGCAATGATG
**
27989220 TGTAAGACCATGTCTAAGACATTGGCATCGTTAT
1 TGTAAGACCATGTCTGGGACATTGGCATC-TTAT
27989254 ATGATTTCGT
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
43 64 0.96
44 2 0.03
45 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.32
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATTGGCATCTTATGCAATGATG
Found at i:27998684 original size:19 final size:19
Alignment explanation
Indices: 27998660--27998708 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
27998650 GACATAGGGA
27998660 CATGCCCGTGTGCCTTTGG
1 CATGCCCGTGTGCCTTTGG
27998679 CATGCCCGTGTGCCTTTGG
1 CATGCCCGTGTGCCTTTGG
*
27998698 CACGCCCGTGT
1 CATGCCCGTGT
27998709 CTTCAGGTCG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.06, C:0.35, G:0.31, T:0.29
Consensus pattern (19 bp):
CATGCCCGTGTGCCTTTGG
Found at i:28000839 original size:46 final size:46
Alignment explanation
Indices: 28000751--28000962 Score: 200
Period size: 46 Copynumber: 4.6 Consensus size: 46
28000741 GCCGATGTAT
* * * *
28000751 CATGTCCTAGACATGGTCTTACACT-G-ACACATCTC-ATAGCCGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTCTCATCTCGA-GGCCGATG
*
28000796 CATGTCCCAAACATGTCTTACACTGGCT-TACATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCT-CATCTCGAGGCCGATG
* * * * *
28000842 CATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGCCAATG
1 CATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGAGGCCGATG
* * * *
28000888 CCATCTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGTCGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-CTCGAGGCCGATG
*
28000936 CATGTCTCAGACATGTCTTACACTGGC
1 CATGTCCCAGACATGTCTTACACTGGC
28000963 ACACAATTAA
Statistics
Matches: 137, Mismatches: 22, Indels: 15
0.79 0.13 0.09
Matches are distributed among these distances:
44 10 0.07
45 13 0.09
46 64 0.47
47 27 0.20
48 22 0.16
49 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGAGGCCGATG
Found at i:28003120 original size:24 final size:20
Alignment explanation
Indices: 28003071--28003109 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
28003061 AAATTATAAT
28003071 ATTATTTTTATTTAATAAAG
1 ATTATTTTTATTTAATAAAG
28003091 ATTATTTTTATTTAATAAA
1 ATTATTTTTATTTAATAAA
28003110 ATATGATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (20 bp):
ATTATTTTTATTTAATAAAG
Found at i:28003780 original size:54 final size:53
Alignment explanation
Indices: 28003713--28003819 Score: 196
Period size: 54 Copynumber: 2.0 Consensus size: 53
28003703 GCTCCTAACG
*
28003713 GAAAGAGTTGTAAGAAAATGAGGCCTGGAAATGATTGATTCTTGCGAATAAAT
1 GAAAGAGTGGTAAGAAAATGAGGCCTGGAAATGATTGATTCTTGCGAATAAAT
28003766 NGAAAGAGTGGTAAGAAAATGAGGCCTGGAAATGATTGATTCTTGCGAATAAAT
1 -GAAAGAGTGGTAAGAAAATGAGGCCTGGAAATGATTGATTCTTGCGAATAAAT
28003820 AAGAATAAAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.39, C:0.07, G:0.27, T:0.25
Consensus pattern (53 bp):
GAAAGAGTGGTAAGAAAATGAGGCCTGGAAATGATTGATTCTTGCGAATAAAT
Found at i:28005560 original size:15 final size:15
Alignment explanation
Indices: 28005528--28005556 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
28005518 ATTTTTAGTT
28005528 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
28005543 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
28005557 ATTTCCATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:28006994 original size:86 final size:87
Alignment explanation
Indices: 28006849--28007278 Score: 450
Period size: 86 Copynumber: 5.0 Consensus size: 87
28006839 ATATATGTGA
* * *
28006849 CATCGATATGTGATTACGAGTAGGACCACGTCTGGGACGTTGGCATCAATATGTGATTACG-AGT
1 CATCGATATGTGATTACGAGTAAGACCACGTCTGGGACGTTGACATCGATATGTGATTACGTAGT
*
28006913 AGGACCACGTCTGGGACATTGG
66 AAGACCACGTCTGGGACATTGG
*
28006935 CATCGATATGTGATTACGAGTAAGACCACGTCTGGGACATTGACATCGATATGTGATTACG-AGT
1 CATCGATATGTGATTACGAGTAAGACCACGTCTGGGACGTTGACATCGATATGTGATTACGTAGT
*
28006999 AAGACCACGTCTGGGACGTTGG
66 AAGACCACGTCTGGGACATTGG
* * * * *
28007021 CATCGATATGTGATTATGAGTAAGACCACGTTTGGGATGTTGGCATCAATATGTGATTACGTA-T
1 CATCGATATGTGATTACGAGTAAGACCACGTCTGGGACGTTGACATCGATATGTGATTACGTAGT
* *** *
28007085 AAGGCCACGTCTGGGGTGTTGT
66 AAGACCACGTCTGGGACATTGG
* * * * * *
28007107 CATCGATATGTGATTACGTGTAAGACCACGTCTAGGCCGTTGACATCGATATATGGTTACGTA-A
1 CATCGATATGTGATTACGAGTAAGACCACGTCTGGGACGTTGACATCGATATGTGATTACGTAGT
* * * * *
28007171 AAGA-TATGTTTAGGACATCGG
66 AAGACCACGTCTGGGACATTGG
* * * ** *
28007192 CATCG-TATTTGATT-CGTGTAAGACC-CTATCTGGGACAG-TGACATCGATATAAGA-TA-GCA
1 CATCGATATGTGATTACGAGTAAGACCAC-GTCTGGGAC-GTTGACATCGATATGTGATTACGTA
*
28007251 TGTAAGACCACATCTGGGACATTGG
64 -GTAAGACCACGTCTGGGACATTGG
28007276 CAT
1 CAT
28007279 TGTACGATAT
Statistics
Matches: 287, Mismatches: 51, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
81 2 0.01
82 3 0.01
83 35 0.12
84 23 0.08
85 13 0.05
86 210 0.73
87 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.28
Consensus pattern (87 bp):
CATCGATATGTGATTACGAGTAAGACCACGTCTGGGACGTTGACATCGATATGTGATTACGTAGT
AAGACCACGTCTGGGACATTGG
Found at i:28007076 original size:129 final size:129
Alignment explanation
Indices: 28006846--28007278 Score: 459
Period size: 129 Copynumber: 3.4 Consensus size: 129
28006836 GATATATATG
* *
28006846 TGACATCGATATGTGATTACGAGTAGGACCACGTCTGGGACGTTGGCATCAATATGTGATTACGA
1 TGACATCGATATGTGATTACGAGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACGA
* *
28006911 GTAGGACCACGTCTGGGACATTGGCATCGATATGTGATTACG-AGTAAGACCACGTCTGGGACAT
66 GTAAGACCACGTCTGGGACATTGGCATCAATATGTGATTACGTA-TAAGACCACGTCTGGGACAT
*
28006975 TGACATCGATATGTGATTACGAGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTATGA
1 TGACATCGATATGTGATTACGAGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACGA
* ** * ***
28007040 GTAAGACCACGTTTGGGATGTTGGCATCAATATGTGATTACGTATAAGGCCACGTCTGGGGTGT
66 GTAAGACCACGTCTGGGACATTGGCATCAATATGTGATTACGTATAAGACCACGTCTGGGACAT
* * * * * * *
28007104 TGTCATCGATATGTGATTACGTGTAAGACCACGTCTAGGCCGTTGACATCGATATATGGTTACGT
1 TGACATCGATATGTGATTACGAGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACG-
* * * * * * * * * *
28007169 A-AAAGA-TATGTTTAGGACATCGGCATC-GTATTTGATT-CGTGTAAGACC-CTATCTGGGACA
65 AGTAAGACCACGTCTGGGACATTGGCATCAATATGTGATTACGTATAAGACCAC-GTCTGGGACA
*
28007229 G
129 T
** * *
28007230 TGACATCGATATAAGA-TA-GCATGTAAGACCACATCTGGGACATTGGCAT
1 TGACATCGATATGTGATTACG-A-GTAAGACCACGTCTGGGACGTTGGCAT
28007279 TGTACGATAT
Statistics
Matches: 254, Mismatches: 45, Indels: 13
0.81 0.14 0.04
Matches are distributed among these distances:
124 1 0.00
125 3 0.01
126 50 0.20
127 8 0.03
128 15 0.06
129 175 0.69
130 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.28
Consensus pattern (129 bp):
TGACATCGATATGTGATTACGAGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACGA
GTAAGACCACGTCTGGGACATTGGCATCAATATGTGATTACGTATAAGACCACGTCTGGGACAT
Found at i:28007168 original size:43 final size:43
Alignment explanation
Indices: 28006849--28007167 Score: 442
Period size: 43 Copynumber: 7.4 Consensus size: 43
28006839 ATATATGTGA
*
28006849 CATCGATATGTGATTACGAGTAGGACCACGTCTGGGACGTTGG
1 CATCGATATGTGATTACGAGTAAGACCACGTCTGGGACGTTGG
* * *
28006892 CATCAATATGTGATTACGAGTAGGACCACGTCTGGGACATTGG
1 CATCGATATGTGATTACGAGTAAGACCACGTCTGGGACGTTGG
* *
28006935 CATCGATATGTGATTACGAGTAAGACCACGTCTGGGACATTGA
1 CATCGATATGTGATTACGAGTAAGACCACGTCTGGGACGTTGG
28006978 CATCGATATGTGATTACGAGTAAGACCACGTCTGGGACGTTGG
1 CATCGATATGTGATTACGAGTAAGACCACGTCTGGGACGTTGG
* * *
28007021 CATCGATATGTGATTATGAGTAAGACCACGTTTGGGATGTTGG
1 CATCGATATGTGATTACGAGTAAGACCACGTCTGGGACGTTGG
* * ** *
28007064 CATCAATATGTGATTACGTA-TAAGGCCACGTCTGGGGTGTTGT
1 CATCGATATGTGATTACG-AGTAAGACCACGTCTGGGACGTTGG
* * * *
28007107 CATCGATATGTGATTACGTGTAAGACCACGTCTAGGCCGTTGA
1 CATCGATATGTGATTACGAGTAAGACCACGTCTGGGACGTTGG
* *
28007150 CATCGATATATGGTTACG
1 CATCGATATGTGATTACG
28007168 TAAAAGATAT
Statistics
Matches: 249, Mismatches: 25, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
43 248 1.00
44 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (43 bp):
CATCGATATGTGATTACGAGTAAGACCACGTCTGGGACGTTGG
Found at i:28015367 original size:94 final size:95
Alignment explanation
Indices: 28015188--28015368 Score: 328
Period size: 94 Copynumber: 1.9 Consensus size: 95
28015178 CCTCTCTCCT
*
28015188 AGAGTTTCCATAGAAATATTTGGGGAAGATGATATGAATTTTTTTTTCTTTTTCATTTAGGGTGC
1 AGAGTTTCCATAGAAATATTTGGGGAAGATAATATGAATTTTTTTTTCTTTTTCATTTAGGGTGC
*
28015253 GTTTGTTTGCTAGGAAAACATTTTCCGGAG
66 ATTTGTTTGCTAGGAAAACATTTTCCGGAG
28015283 AGAGTTTCCATAGAAATATTTGGGGAAGATAATATGAA-TTTTTTTTCTTTTTCATTTAGGGTGC
1 AGAGTTTCCATAGAAATATTTGGGGAAGATAATATGAATTTTTTTTTCTTTTTCATTTAGGGTGC
*
28015347 ATTTGTTTGTTAGGAAAACATT
66 ATTTGTTTGCTAGGAAAACATT
28015369 GATTTTCCGG
Statistics
Matches: 83, Mismatches: 3, Indels: 1
0.95 0.03 0.01
Matches are distributed among these distances:
94 46 0.55
95 37 0.45
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.43
Consensus pattern (95 bp):
AGAGTTTCCATAGAAATATTTGGGGAAGATAATATGAATTTTTTTTTCTTTTTCATTTAGGGTGC
ATTTGTTTGCTAGGAAAACATTTTCCGGAG
Done.