Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 86 of 320
Found at i:27354332 original size:19 final size:19
Alignment explanation
Indices: 27354308--27354344 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
27354298 GTGTTCATAT
27354308 TGTGCGTTTGGGTCATAGA
1 TGTGCGTTTGGGTCATAGA
27354327 TGTGCGTTTGGGTCATAG
1 TGTGCGTTTGGGTCATAG
27354345 CGCTATTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.14, C:0.11, G:0.38, T:0.38
Consensus pattern (19 bp):
TGTGCGTTTGGGTCATAGA
Found at i:27357232 original size:71 final size:71
Alignment explanation
Indices: 27357114--27357256 Score: 207
Period size: 71 Copynumber: 2.0 Consensus size: 71
27357104 TCACTAAACC
* * * *
27357114 ATTATCCTCATCGCCTTTTTGCCAGTTTAGGGAGAAACTTCATGTCACAATGCAGTAGTAGATGG
1 ATTATCCTCATCGCCTTTTTGCCAGTTCAAGGAGAAACTTCAGGTCACAATACAGTAGTAGATGG
*
27357179 GTGAAT
66 GTAAAT
* *
27357185 ATTATCCTCATCTCCTTTTTGTCC-GTTCAAGGAGAAACTTCAGGTCACAATATAGTAGTAGATG
1 ATTATCCTCATCGCCTTTTTG-CCAGTTCAAGGAGAAACTTCAGGTCACAATACAGTAGTAGATG
27357249 GGTAAAT
65 GGTAAAT
27357256 A
1 A
27357257 GTTGAGTTAG
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
71 62 0.97
72 2 0.03
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (71 bp):
ATTATCCTCATCGCCTTTTTGCCAGTTCAAGGAGAAACTTCAGGTCACAATACAGTAGTAGATGG
GTAAAT
Found at i:27379071 original size:40 final size:41
Alignment explanation
Indices: 27378978--27379079 Score: 107
Period size: 40 Copynumber: 2.5 Consensus size: 41
27378968 ACATACTGTA
* **
27378978 TCTGAGATGGGCTAAGGCCCTAATATATAGGTCTGATTCTATT
1 TCTGAG-TGGGCTAAGGCCCTAATACATA-GTCTGATTCTACG
* * * *
27379021 TTTGATTGGGCTAAGGCCCTAGTACAT-TTCTGATTCTACG
1 TCTGAGTGGGCTAAGGCCCTAATACATAGTCTGATTCTACG
*
27379061 TCTGAGTGGGCTGAGGCCC
1 TCTGAGTGGGCTAAGGCCC
27379080 ATACTGATTT
Statistics
Matches: 49, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
40 26 0.53
42 19 0.39
43 4 0.08
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.33
Consensus pattern (41 bp):
TCTGAGTGGGCTAAGGCCCTAATACATAGTCTGATTCTACG
Found at i:27386222 original size:94 final size:94
Alignment explanation
Indices: 27386105--27386275 Score: 265
Period size: 94 Copynumber: 1.8 Consensus size: 94
27386095 AAGCTAACGC
* *
27386105 CATGTCCCAGACAGGTCTTACACT-AGCTTGTATATCTTGAGGCCAATGGATGTCCCAGACATGG
1 CATGTCCCAGACAGGTCTTACACTGA-CTTGTATATCTCGAGGCCAATGCATGTCCCAGACAT-G
27386169 T-TTACACTGGCTCTCGTCTCAATGTTGATG
64 TCTTACACTGGCTCTCGTCTCAATGTTGATG
* * *
27386199 CATGTCCCAGACATGTTTTACACTGACTTGTATATCTCGAGGCCGATGCATGTCCCAGACATGTC
1 CATGTCCCAGACAGGTCTTACACTGACTTGTATATCTCGAGGCCAATGCATGTCCCAGACATGTC
27386264 TTACACTGGCTC
66 TTACACTGGCTC
27386276 CTGTAATGTG
Statistics
Matches: 70, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
93 2 0.03
94 67 0.96
95 1 0.01
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.30
Consensus pattern (94 bp):
CATGTCCCAGACAGGTCTTACACTGACTTGTATATCTCGAGGCCAATGCATGTCCCAGACATGTC
TTACACTGGCTCTCGTCTCAATGTTGATG
Found at i:27386259 original size:48 final size:48
Alignment explanation
Indices: 27386105--27386315 Score: 179
Period size: 48 Copynumber: 4.5 Consensus size: 48
27386095 AAGCTAACGC
* * *
27386105 CATGTCCCAGACAGGTCTTACACT-AGCTTGTATATCTTGAGGCCAATG
1 CATGTCCCAGACATGTCTTACACTGA-CTTGTATATCTCGAGGCCGATG
* * * ** * * **
27386153 GATGTCCCAGACATGGT-TTACACTGGC-TCT-CGTCTCAATGTTGATG
1 CATGTCCCAGACAT-GTCTTACACTGACTTGTATATCTCGAGGCCGATG
*
27386199 CATGTCCCAGACATGTTTTACACTGACTTGTATATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGACTTGTATATCTCGAGGCCGATG
* *
27386247 CATGTCCCAGACATGTCTTACACTGGCTCCTGTA-A--T-GTGGCCGAT-
1 CATGTCCCAGACATGTCTTACACTGACT--TGTATATCTCGAGGCCGATG
*
27386292 CATGTCCCAAACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
27386316 AGCACACATA
Statistics
Matches: 131, Mismatches: 25, Indels: 17
0.76 0.14 0.10
Matches are distributed among these distances:
45 25 0.19
46 38 0.29
47 5 0.04
48 56 0.43
49 3 0.02
50 4 0.03
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTGACTTGTATATCTCGAGGCCGATG
Found at i:27386917 original size:20 final size:19
Alignment explanation
Indices: 27386881--27386930 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
27386871 TATAGCAACT
*
27386881 CACATTTTCAATTATTTCA
1 CACATTTACAATTATTTCA
*
27386900 CACATTTACAACTTATTTTA
1 CACATTTACAA-TTATTTCA
27386920 CA-ACTTTACAA
1 CACA-TTTACAA
27386931 AATAGCCCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 11 0.41
20 16 0.59
ACGTcount: A:0.36, C:0.22, G:0.00, T:0.42
Consensus pattern (19 bp):
CACATTTACAATTATTTCA
Found at i:27392966 original size:43 final size:43
Alignment explanation
Indices: 27392830--27392978 Score: 155
Period size: 43 Copynumber: 3.5 Consensus size: 43
27392820 TGAGATTTCG
* * *
27392830 TGTAAGACCACGTCTGGGAC-GTTGGCATTGAT-TTGAGATTTACG
1 TGTAAGACCACGTCTGGGACAG-TGGCATCGATATT-TGA-TTACA
* * * *
27392874 TGTAAGACCATGTCTGGGACA-TCGACATC-ATATATGATTTCA
1 TGTAAGACCACGTCTGGGACAGT-GGCATCGATATTTGATTACA
27392916 TGTAAGACC-CTGTCTGGGACAGTGGCATCGATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGACAGTGGCATCGATATTTGATTACA
27392959 TGTAAGACCACGTCTGGGAC
1 TGTAAGACCACGTCTGGGAC
27392979 GTTAGCTTTG
Statistics
Matches: 87, Mismatches: 11, Indels: 15
0.77 0.10 0.13
Matches are distributed among these distances:
42 27 0.31
43 35 0.40
44 25 0.29
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACAGTGGCATCGATATTTGATTACA
Found at i:27397035 original size:41 final size:41
Alignment explanation
Indices: 27396975--27397099 Score: 207
Period size: 41 Copynumber: 3.0 Consensus size: 41
27396965 ATGTATATAT
*
27396975 TAGTATTGTTGAATCGTGTGCATAATAAACCAGAAGTTTAC
1 TAGTATTTTTGAATCGTGTGCATAATAAACCAGAAGTTTAC
27397016 TAGTATTTTTGAAAT-GTGTGCATAATAAACCAGAAGTTTAC
1 TAGTATTTTTG-AATCGTGTGCATAATAAACCAGAAGTTTAC
* *
27397057 TAGTATTTTTGAATCGTGTGCGTAATAAATCAGAAGTTTAC
1 TAGTATTTTTGAATCGTGTGCATAATAAACCAGAAGTTTAC
27397098 TA
1 TA
27397100 AGTCTAAAAA
Statistics
Matches: 79, Mismatches: 3, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
40 3 0.04
41 73 0.92
42 3 0.04
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.37
Consensus pattern (41 bp):
TAGTATTTTTGAATCGTGTGCATAATAAACCAGAAGTTTAC
Found at i:27399340 original size:9 final size:9
Alignment explanation
Indices: 27399326--27399350 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
27399316 GATTTATAGC
27399326 TTACTTTGT
1 TTACTTTGT
27399335 TTACTTTGT
1 TTACTTTGT
27399344 TTACTTT
1 TTACTTT
27399351 TCCGTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.12, G:0.08, T:0.68
Consensus pattern (9 bp):
TTACTTTGT
Found at i:27400534 original size:16 final size:16
Alignment explanation
Indices: 27400513--27400551 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
27400503 AGGACTAACA
*
27400513 TAGCTATTTGAGAGTC
1 TAGCTATGTGAGAGTC
27400529 TAGCTATGTGAGAGTC
1 TAGCTATGTGAGAGTC
27400545 TAGCTAT
1 TAGCTAT
27400552 ACATGCCATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.36
Consensus pattern (16 bp):
TAGCTATGTGAGAGTC
Found at i:27403707 original size:6 final size:6
Alignment explanation
Indices: 27403696--27403772 Score: 59
Period size: 6 Copynumber: 12.5 Consensus size: 6
27403686 TCATAACTAA
* * *
27403696 AATCAG AATCAG AATCAG AATCAG -GTGACAG AATCAG GATTAG AATCAG
1 AATCAG AATCAG AATCAG AATCAG AAT--CAG AATCAG AATCAG AATCAG
* *
27403745 TATCAGG TAA-CAG AATCAA AATCAG AAT
1 AATCA-G -AATCAG AATCAG AATCAG AAT
27403773 GTGAATGCAA
Statistics
Matches: 55, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
5 3 0.05
6 44 0.80
7 6 0.11
8 2 0.04
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.19
Consensus pattern (6 bp):
AATCAG
Found at i:27403732 original size:31 final size:31
Alignment explanation
Indices: 27403696--27403772 Score: 109
Period size: 31 Copynumber: 2.5 Consensus size: 31
27403686 TCATAACTAA
*
27403696 AATCAGAATCAGAATCAGAATCAGGTGACAG
1 AATCAGAATCAGAATCAGAATCAGGTAACAG
* * *
27403727 AATCAGGATTAGAATCAGTATCAGGTAACAG
1 AATCAGAATCAGAATCAGAATCAGGTAACAG
*
27403758 AATCAAAATCAGAAT
1 AATCAGAATCAGAAT
27403773 GTGAATGCAA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.19
Consensus pattern (31 bp):
AATCAGAATCAGAATCAGAATCAGGTAACAG
Found at i:27403951 original size:27 final size:26
Alignment explanation
Indices: 27403910--27404010 Score: 121
Period size: 27 Copynumber: 3.8 Consensus size: 26
27403900 CTCAGTTATT
* * *
27403910 AGATATTGTGACAGAGTCACCTGATAC
1 AGATATTGTGGCAGAGCCACCAGA-AC
27403937 AGATATTGTGGCAGAGCCACCAGAAC
1 AGATATTGTGGCAGAGCCACCAGAAC
*
27403963 AGATATTTGTGGCATAGCCACCAGAAAC
1 AGATA-TTGTGGCAGAGCCACCAG-AAC
* *
27403991 AGATAATGTGGCAAAGCCAC
1 AGATATTGTGGCAGAGCCAC
27404011 TTAACAGAAT
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
26 7 0.11
27 51 0.77
28 8 0.12
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.20
Consensus pattern (26 bp):
AGATATTGTGGCAGAGCCACCAGAAC
Found at i:27404696 original size:27 final size:27
Alignment explanation
Indices: 27404660--27404917 Score: 320
Period size: 27 Copynumber: 9.6 Consensus size: 27
27404650 TAACCCACAA
* *
27404660 GGTATCTCGGTAATTCTACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
27404687 GGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* * *
27404714 GGTATTGCGATAATTCTACCCGACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* * *
27404741 GGTATTTTGGTAATTCTACCCCTATATG
1 GGTATTTCGGTAATTCTA-CCCTACAGG
* *
27404769 GGTATTTCAGTAATTTTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
27404796 AGTATTTTGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* * * *
27404823 GGTATTTCAGTAA-TCTGCCCTATAAG
1 GGTATTTCGGTAATTCTACCCTACAGG
** *
27404849 GGTATTTTAGTAATTCTACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
27404876 GGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
27404903 GGTATTTCAGTAATT
1 GGTATTTCGGTAATT
27404918 TCACAATTGA
Statistics
Matches: 196, Mismatches: 33, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
26 22 0.11
27 153 0.78
28 21 0.11
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.36
Consensus pattern (27 bp):
GGTATTTCGGTAATTCTACCCTACAGG
Found at i:27404881 original size:80 final size:81
Alignment explanation
Indices: 27404660--27404917 Score: 356
Period size: 80 Copynumber: 3.2 Consensus size: 81
27404650 TAACCCACAA
* * * * * *
27404660 GGTATCTCGGTAATTCTACCCTATAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTGCGAT
1 GGTATTTCAGTAATTCTACCCTATAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGT
*
27404725 AATTCTACCCGACAGG
66 AATTCTACCCTACAGG
** * * * *
27404741 GGTATTTTGGTAATTCTACCCCTATATGGGTATTTCAGTAATTTTACCCTACAGGAGTATTTTGG
1 GGTATTTCAGTAATTCTA-CCCTATAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGG
27404806 TAATTCTACCCTACAGG
65 TAATTCTACCCTACAGG
* * *
27404823 GGTATTTCAGTAA-TCTGCCCTATAAGGGTATTTTAGTAATTCTACCCTATAGGGGTATTTCGGT
1 GGTATTTCAGTAATTCTACCCTATAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGT
27404887 AATTCTACCCTACAGG
66 AATTCTACCCTACAGG
27404903 GGTATTTCAGTAATT
1 GGTATTTCAGTAATT
27404918 TCACAATTGA
Statistics
Matches: 156, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
80 70 0.45
81 20 0.13
82 66 0.42
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.36
Consensus pattern (81 bp):
GGTATTTCAGTAATTCTACCCTATAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGT
AATTCTACCCTACAGG
Found at i:27404931 original size:80 final size:79
Alignment explanation
Indices: 27404686--27404946 Score: 281
Period size: 80 Copynumber: 3.2 Consensus size: 79
27404676 TACCCTATAG
* * * * **
27404686 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTGCGATAATTCTACCCGACAGGGGTATTTTGG
1 GGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAG
**
27404751 TAA-TTCTACCCCTATA
66 TAATTTC-A-CAAT-TA
* * *
27404767 TGGGTATTTCAGTAATTTTACCCTACAGGAGTATTTTGGTAATTCTACCCTACAGGGGTATTTCA
1 -GGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
* * * *
27404832 GTAATCTGCCCTATAA
65 GTAAT-TTCACAATTA
* *
27404848 GGGTATTTTAGTAATTCTACCCTATAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAG
1 GGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAG
27404913 TAATTTCACAATTGA
66 TAATTTCACAATT-A
***
27404928 GGGTAAAACAGTAATTCTA
1 GGGTATTTCAGTAATTCTA
27404947 TAAATCGAGG
Statistics
Matches: 149, Mismatches: 27, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
79 5 0.03
80 80 0.54
81 1 0.01
82 61 0.41
84 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.35
Consensus pattern (79 bp):
GGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAG
TAATTTCACAATTA
Found at i:27404956 original size:27 final size:27
Alignment explanation
Indices: 27404926--27405491 Score: 689
Period size: 27 Copynumber: 21.0 Consensus size: 27
27404916 TTTCACAATT
*
27404926 GAGGGTAAAACAGTAATTCTATAAATC
1 GAGGGTAAAACGGTAATTCTATAAATC
* * * * *
27404953 GAGGGTAAAATGATAATTTTGTAAACC
1 GAGGGTAAAACGGTAATTCTATAAATC
27404980 GAGGGTAAATA--GTAATTCTATAAATC
1 GAGGGTAAA-ACGGTAATTCTATAAATC
* * * *
27405006 GAGGGTAAAATGGTAATTTTACAAATT
1 GAGGGTAAAACGGTAATTCTATAAATC
* * *
27405033 GAGGGTAAAACGATAATTCTGTAAATT
1 GAGGGTAAAACGGTAATTCTATAAATC
*
27405060 GAGGGTAAAACGGTAATT-TGTAAATC
1 GAGGGTAAAACGGTAATTCTATAAATC
27405086 GAGGGTAAAACGGTAATTCTATAAATC
1 GAGGGTAAAACGGTAATTCTATAAATC
** * *
27405113 GAGGGTAAAATAGTAATTTTGTAAA-C
1 GAGGGTAAAACGGTAATTCTATAAATC
*
27405139 TGAGGGTAAAACGGTAATTCTGTAAA-C
1 -GAGGGTAAAACGGTAATTCTATAAATC
*
27405166 TGAGGGTAAAACGATAATTCTATAAATC
1 -GAGGGTAAAACGGTAATTCTATAAATC
** *
27405194 GAGGGTAAAATAGTAATTCTGTAAA-C
1 GAGGGTAAAACGGTAATTCTATAAATC
*
27405220 TGAGGGTAAAACGGTAATTCTGTAAATC
1 -GAGGGTAAAACGGTAATTCTATAAATC
* *
27405248 GAGGGTAAAACGGTAATTTTACAAATC
1 GAGGGTAAAACGGTAATTCTATAAATC
27405275 GAGGGTAAAACGGTAATTCTATAAATC
1 GAGGGTAAAACGGTAATTCTATAAATC
**
27405302 GAGGGTAAAACAATAATTCTATAAA-C
1 GAGGGTAAAACGGTAATTCTATAAATC
* * *
27405328 TGGGGGTAAAACGGTTATTCTGTAAATC
1 -GAGGGTAAAACGGTAATTCTATAAATC
* * * *
27405356 AAGGGTAAAATGGTAATTCTGTAAATT
1 GAGGGTAAAACGGTAATTCTATAAATC
27405383 GAGGGTAAAACGGTAATTCTATAAATC
1 GAGGGTAAAACGGTAATTCTATAAATC
*
27405410 GAGGGTAAAACGGTAA-TCTTAAAAATC
1 GAGGGTAAAACGGTAATTC-TATAAATC
27405437 GAGGGTAAAACGGTAATTCTATAAATC
1 GAGGGTAAAACGGTAATTCTATAAATC
*
27405464 GAGGGTAAAACGGTAATTCTGTAAATC
1 GAGGGTAAAACGGTAATTCTATAAATC
27405491 G
1 G
27405492 GGAGTACTTT
Statistics
Matches: 467, Mismatches: 60, Indels: 24
0.85 0.11 0.04
Matches are distributed among these distances:
25 1 0.00
26 50 0.11
27 410 0.88
28 6 0.01
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (27 bp):
GAGGGTAAAACGGTAATTCTATAAATC
Found at i:27416716 original size:27 final size:26
Alignment explanation
Indices: 27416686--27416859 Score: 161
Period size: 27 Copynumber: 6.4 Consensus size: 26
27416676 AAATTGTACA
*
27416686 GCACTAAGTGTGCGATTCGACTATGTT
1 GCACTAAGTGTGCGATT-GACTATGTG
* *
27416713 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCG-ATTGACTATG-TG
* *
27416740 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCG-ATTGACTATGTG
*
27416767 GCACTAAGTGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGA-T-TGACTATGTG
* *
27416795 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGA-TTGACTATGTG
* * *
27416822 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGA-TTGACTATGTG
*
27416849 GCACTGAGTGT
1 GCACTAAGTGT
27416860 CCGGGCTCAA
Statistics
Matches: 124, Mismatches: 18, Indels: 10
0.82 0.12 0.07
Matches are distributed among these distances:
26 1 0.01
27 97 0.78
28 26 0.21
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (26 bp):
GCACTAAGTGTGCGATTGACTATGTG
Found at i:27416801 original size:82 final size:81
Alignment explanation
Indices: 27416686--27416841 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
27416676 AAATTGTACA
* * *
27416686 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
27416750 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
27416767 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
27416832 TGCGAGTTGA
65 TGCGAATTGA
27416842 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 18 0.27
82 48 0.73
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:27416853 original size:82 final size:81
Alignment explanation
Indices: 27416682--27416859 Score: 214
Period size: 82 Copynumber: 2.2 Consensus size: 81
27416672 GATTAAATTG
* * *
27416682 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
27416747 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
27416763 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
27416827 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
27416845 TATAGCACTGAGTGT
1 TACAGCACTAAGTGT
27416860 CCGGGCTCAA
Statistics
Matches: 80, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 20 0.25
82 60 0.75
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:27421903 original size:13 final size:13
Alignment explanation
Indices: 27421885--27421909 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27421875 TCGAGCACAC
27421885 GCCCGTGTCCCTA
1 GCCCGTGTCCCTA
27421898 GCCCGTGTCCCT
1 GCCCGTGTCCCT
27421910 TACACGGCCT
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:0.04, C:0.48, G:0.24, T:0.24
Consensus pattern (13 bp):
GCCCGTGTCCCTA
Found at i:27427933 original size:46 final size:46
Alignment explanation
Indices: 27427880--27428052 Score: 186
Period size: 46 Copynumber: 3.7 Consensus size: 46
27427870 TTGAGCATCT
*
27427880 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCC
*** * * ** *
27427926 GAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AAACGTCC
* * *
27427973 GAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCC
** *
27428019 GAGTTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
27428053 GCGGGTTACA
Statistics
Matches: 101, Mismatches: 23, Indels: 6
0.78 0.18 0.05
Matches are distributed among these distances:
46 65 0.64
47 36 0.36
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.28
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCC
Found at i:27428033 original size:93 final size:93
Alignment explanation
Indices: 27427874--27428045 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
27427864 GGATTGTTGA
* * * *
27427874 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAACGCCCGAACTCGTTGAGT
27427939 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* **
27427967 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAGTTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAACGCCCGAACTCGTTGAGT
27428032 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
27428046 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:27437211 original size:34 final size:34
Alignment explanation
Indices: 27437128--27437213 Score: 102
Period size: 34 Copynumber: 2.5 Consensus size: 34
27437118 GATTCTTTTT
*
27437128 CTGCATACTG-TACTGATATGGGCTAAGGCCCAGA
1 CTGC-TACTGTTACTGAAATGGGCTAAGGCCCAGA
** * * *
27437162 CTGCTTTTATCACTGAAATGGGCTAAGGCCTAGA
1 CTGCTACTGTTACTGAAATGGGCTAAGGCCCAGA
27437196 CTGCTACTGTTACTGAAA
1 CTGCTACTGTTACTGAAA
27437214 AGGGGGTTAA
Statistics
Matches: 41, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
33 2 0.05
34 39 0.95
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (34 bp):
CTGCTACTGTTACTGAAATGGGCTAAGGCCCAGA
Found at i:27438746 original size:21 final size:21
Alignment explanation
Indices: 27438720--27438763 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
27438710 AAGTGTACCG
*
27438720 TACTGG-TAGCTCTCCTGCAAT
1 TACTGGAT-GCTCTCCTACAAT
*
27438741 TACTGGATGCTCTTCTACAAT
1 TACTGGATGCTCTCCTACAAT
27438762 TA
1 TA
27438764 TTGAATAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (21 bp):
TACTGGATGCTCTCCTACAAT
Found at i:27438858 original size:22 final size:23
Alignment explanation
Indices: 27438830--27438872 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
27438820 TTATCCCCAC
*
27438830 ATGGAGTGTAG-GGCTGGATGGA
1 ATGGAGTGTAGAGGATGGATGGA
27438852 ATGGAGTGTAGAGGATGGATG
1 ATGGAGTGTAGAGGATGGATG
27438873 TGTAGGATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.26, C:0.02, G:0.49, T:0.23
Consensus pattern (23 bp):
ATGGAGTGTAGAGGATGGATGGA
Found at i:27441433 original size:49 final size:49
Alignment explanation
Indices: 27441380--27441560 Score: 229
Period size: 49 Copynumber: 3.7 Consensus size: 49
27441370 CTGGTATGCA
* *
27441380 TAGTAGCCTGCACTTAGTACTAAACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
** * * * * *
27441429 TAGTAGCCTATA-TTAGTACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-TTATCCGGTACACG
*
27441479 TAATAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
* *
27441528 TAGTAGCCTGCACTTTGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC
27441561 TCACTATAGA
Statistics
Matches: 109, Mismatches: 20, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
48 15 0.14
49 54 0.50
50 23 0.21
51 17 0.16
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
Found at i:27441536 original size:99 final size:100
Alignment explanation
Indices: 27441365--27441558 Score: 309
Period size: 99 Copynumber: 1.9 Consensus size: 100
27441355 TGTAGACAAG
* * *
27441365 GTTATCTGGTATGCATAGTAGCCTGCACTTAGTACTAAACATGCGACCAATTATCCGGTACACGT
1 GTTATCGGGTACGCATAATAGCCTGCACTTAGTACTAAACATGCGACCAATTATCCGGTACACGT
*
27441430 AGTAGCCTATA-TTAGTACTACACACGTGATCGAA
66 AGTAGCCTACACTTAGTACTACACACGTGATCGAA
* *
27441464 GTTATCGGGTACGCATAATAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACGT
1 GTTATCGGGTACGCATAATAGCCTGCACTTAGTACTAAACATGCGACCAATTATCCGGTACACGT
* *
27441529 AGTAGCCTGCACTTTGTACTACACACGTGA
66 AGTAGCCTACACTTAGTACTACACACGTGA
27441559 CCTCACTATA
Statistics
Matches: 86, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
99 69 0.80
100 17 0.20
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.28
Consensus pattern (100 bp):
GTTATCGGGTACGCATAATAGCCTGCACTTAGTACTAAACATGCGACCAATTATCCGGTACACGT
AGTAGCCTACACTTAGTACTACACACGTGATCGAA
Found at i:27441823 original size:27 final size:27
Alignment explanation
Indices: 27441793--27441846 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
27441783 TTCATACAAC
* *
27441793 CATGTAATAGTAATTTAG-CATTCAATT
1 CATGTAACAATAATTT-GCCATTCAATT
27441820 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTGCCATTCAATT
27441847 TCACATGACA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 1 0.04
27 23 0.96
ACGTcount: A:0.37, C:0.15, G:0.09, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTGCCATTCAATT
Found at i:27447976 original size:55 final size:55
Alignment explanation
Indices: 27447910--27448028 Score: 148
Period size: 55 Copynumber: 2.2 Consensus size: 55
27447900 CTTCTCCCAT
* **
27447910 GCCCGTGTTAATTTAATAGGTTTGACCACAGTTGCTTGGCACGGACGTGTCGCAC
1 GCCCGTGTTAATTTAACAGGTTTGACCACAGTTGCAAGGCACGGACGTGTCGCAC
* * * * * *
27447965 GCCCGTGTTAATTTGACAGGTTTGGCCACGGTTTCAAGGCATGGCCGTGTCGCAC
1 GCCCGTGTTAATTTAACAGGTTTGACCACAGTTGCAAGGCACGGACGTGTCGCAC
*
27448020 GCCCATGTT
1 GCCCGTGTT
27448029 GTTTTGGCAG
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.18, C:0.25, G:0.29, T:0.29
Consensus pattern (55 bp):
GCCCGTGTTAATTTAACAGGTTTGACCACAGTTGCAAGGCACGGACGTGTCGCAC
Found at i:27449063 original size:25 final size:25
Alignment explanation
Indices: 27449035--27449086 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
27449025 TCCTAGTCTG
27449035 TTTGGGTTTCCCAAGACCTAATTGT
1 TTTGGGTTTCCCAAGACCTAATTGT
27449060 TTTGGGTTTCCCAAGACCTAATTGT
1 TTTGGGTTTCCCAAGACCTAATTGT
27449085 TT
1 TT
27449087 AAACATCTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (25 bp):
TTTGGGTTTCCCAAGACCTAATTGT
Found at i:27453542 original size:48 final size:48
Alignment explanation
Indices: 27453488--27453731 Score: 219
Period size: 48 Copynumber: 5.0 Consensus size: 48
27453478 GGACCTCCTA
* * *
27453488 TCGATGCCAATGCCATTTTCCAGATATGGTCTTACAAGGGATCTCATAC
1 TCGATGCCGATGCCA-TATCCAGATATGGTCTTACACGGGATCTCATAC
* * ** * * **
27453537 T-GATGCTGATGCCATGTCCTAGACGTGATCTTATACGGGATCTTTTA-
1 TCGATGCCGATGCCATATCC-AGATATGGTCTTACACGGGATCTCATAC
* * *
27453584 TCGATGCTGATGCCATATCCAAGATATGGACTTACATGGGATCTCATAC
1 TCGATGCCGATGCCATATCC-AGATATGGTCTTACACGGGATCTCATAC
*
27453633 T-GATACCGATGCCATATCCCA-ACTATGGTCTTACACGGGATCTCAT-C
1 TCGATGCCGATGCCATAT-CCAGA-TATGGTCTTACACGGGATCTCATAC
* * * *
27453680 TCGATGTCGATGCCATATCACATATATGATCTTATACGGGATCTCAATAC
1 TCGATGCCGATGCCATATC-CAGATATGGTCTTACACGGGATCTC-ATAC
27453730 TC
1 TC
27453732 ACATGTCGTG
Statistics
Matches: 157, Mismatches: 28, Indels: 19
0.77 0.14 0.09
Matches are distributed among these distances:
47 9 0.06
48 138 0.88
49 7 0.04
50 3 0.02
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (48 bp):
TCGATGCCGATGCCATATCCAGATATGGTCTTACACGGGATCTCATAC
Found at i:27453549 original size:96 final size:95
Alignment explanation
Indices: 27453447--27453698 Score: 254
Period size: 96 Copynumber: 2.6 Consensus size: 95
27453437 ATAACGGTGT
* *
27453447 TGATGCCATGTCCCATACATGGTCTTATATAGGACCTCCTATCGATGCCAATGCCATTTTCC-AG
1 TGATGCCATGTCCCA-ACATGGTCTTATACAGGACCTCCTATCGATGCCAATGCCA-TATCCAAG
* *
27453511 ATATGGTCTTACAAGGGATCTCATACTGATGC
64 ATATGGACTTACAAGGGATCTCATACTGATAC
* * * * * ** **
27453543 TGATGCCATGTCCTAGACGTGATCTTATACGGGATCTTTTATCGATGCTGATGCCATATCCAAGA
1 TGATGCCATGTCCCA-ACATGGTCTTATACAGGACCTCCTATCGATGCCAATGCCATATCCAAGA
*
27453608 TATGGACTTACATGGGATCTCATACTGATAC
65 TATGGACTTACAAGGGATCTCATACTGATAC
* * * * * * * * *
27453639 CGATGCCATATCCCAACTATGGTCTTACACGGGATCTCATCTCGATGTCGATGCCATATC
1 TGATGCCATGTCCCAAC-ATGGTCTTATACAGGACCTCCTATCGATGCCAATGCCATATC
27453699 ACATATATGA
Statistics
Matches: 128, Mismatches: 26, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
95 6 0.05
96 122 0.95
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (95 bp):
TGATGCCATGTCCCAACATGGTCTTATACAGGACCTCCTATCGATGCCAATGCCATATCCAAGAT
ATGGACTTACAAGGGATCTCATACTGATAC
Found at i:27453721 original size:96 final size:96
Alignment explanation
Indices: 27453448--27453730 Score: 243
Period size: 96 Copynumber: 2.9 Consensus size: 96
27453438 TAACGGTGTT
* * * * ** * * ** *
27453448 GATGCCATGTCCCATACATGGTCTTATATAGGACCTCCTATCGATGCCAATGCCATTTTCC-AGA
1 GATGCCATATCCCAGACATGATCTTACACGGGATCTCATATCGATGCTGATGCCA-TATCCAAGA
* * *
27453512 TATGGTCTTACAAGGGATCTCATACTGATGCT
65 TATGATCTTACAAGGGATCTCATACTGATACC
* * * * **
27453544 GATGCCATGTCCTAGACGTGATCTTATACGGGATCTTTTATCGATGCTGATGCCATATCCAAGAT
1 GATGCCATATCCCAGACATGATCTTACACGGGATCTCATATCGATGCTGATGCCATATCCAAGAT
*
27453609 ATGGA-CTTACATGGGATCTCATACTGATACC
66 AT-GATCTTACAAGGGATCTCATACTGATACC
* *
27453640 GATGCCATATCCCA-ACTATGGTCTTACACGGGATCTCATCTCGATG-TCGATGCCATAT-CACA
1 GATGCCATATCCCAGAC-ATGATCTTACACGGGATCTCATATCGATGCT-GATGCCATATCCA-A
* * *
27453702 TATATGATCTTATACGGGATCTCAATACT
63 GATATGATCTTACAAGGGATCTC-ATACT
27453731 CACATGTCGT
Statistics
Matches: 153, Mismatches: 27, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
95 11 0.07
96 136 0.89
97 6 0.04
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (96 bp):
GATGCCATATCCCAGACATGATCTTACACGGGATCTCATATCGATGCTGATGCCATATCCAAGAT
ATGATCTTACAAGGGATCTCATACTGATACC
Found at i:27459488 original size:30 final size:31
Alignment explanation
Indices: 27459411--27459494 Score: 127
Period size: 31 Copynumber: 2.8 Consensus size: 31
27459401 TTCAGTCTCG
*
27459411 TCATAT-ACTGGGCTGAAGCCTTTTCATAAA
1 TCATATCACTGGGCCGAAGCCTTTTCATAAA
* *
27459441 ACACATCACTGGGCCGAAGCCTTTTCATAAA
1 TCATATCACTGGGCCGAAGCCTTTTCATAAA
27459472 TCATATCACT-GGCCGAAGCCTTT
1 TCATATCACTGGGCCGAAGCCTTT
27459495 ACTGTAAGCG
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 17 0.35
31 31 0.65
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.29
Consensus pattern (31 bp):
TCATATCACTGGGCCGAAGCCTTTTCATAAA
Found at i:27459741 original size:25 final size:25
Alignment explanation
Indices: 27459688--27459782 Score: 104
Period size: 25 Copynumber: 3.8 Consensus size: 25
27459678 TTTATCATAT
* *
27459688 AACTGGAGGCATAGCCTCTTTT-AAT-
1 AACTGG-GGCAAAGCC-CTTTTCGATA
* *
27459713 AACTGGCGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
27459738 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
27459763 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
27459783 AGCACTTCCT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
23 5 0.08
24 9 0.15
25 47 0.77
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.28
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:27460738 original size:27 final size:27
Alignment explanation
Indices: 27460708--27460805 Score: 92
Period size: 27 Copynumber: 3.6 Consensus size: 27
27460698 GTAAATCTAC
27460708 AAACCAAGGGTATTTC-AGTAATTTTGT
1 AAACCAAGGGTATTTCTA-TAATTTTGT
*
27460735 AAACCAATGGTATTTCTATAATTTT-T
1 AAACCAAGGGTATTTCTATAATTTTGT
* *
27460761 AGAAAGTCAAGGGTATTTCTATAATTGTGT
1 --AAA-CCAAGGGTATTTCTATAATTTTGT
* * *
27460791 TAATCAGGGGTATTT
1 AAACCAAGGGTATTT
27460806 TGGTAATTTT
Statistics
Matches: 60, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
26 1 0.02
27 33 0.55
28 6 0.10
29 19 0.32
30 1 0.02
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTCTATAATTTTGT
Found at i:27460828 original size:27 final size:26
Alignment explanation
Indices: 27460798--27460891 Score: 109
Period size: 27 Copynumber: 3.5 Consensus size: 26
27460788 TGTTAATCAG
*
27460798 GGGTATTTTGGTAATTTTACAAATTGA
1 GGGTATTTTGGTAATTTTACAAACT-A
* *
27460825 GGGTATTTCT-GTAATTTCATAAACTA
1 GGGTATTT-TGGTAATTTTACAAACTA
*
27460851 GTCGTATTTTGGTAATTTTACAAACTA
1 G-GGTATTTTGGTAATTTTACAAACTA
27460878 GGGGTATTTTGGTA
1 -GGGTATTTTGGTA
27460892 CTTCTACCCT
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
26 3 0.05
27 51 0.91
28 2 0.04
ACGTcount: A:0.28, C:0.07, G:0.21, T:0.44
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTACAAACTA
Found at i:27460956 original size:27 final size:27
Alignment explanation
Indices: 27460926--27461017 Score: 112
Period size: 27 Copynumber: 3.4 Consensus size: 27
27460916 GTAATTTCAC
* *
27460926 AATCAAGGGCAAAATGGTAATTTTGTA
1 AATCAAGGGTAAAATAGTAATTTTGTA
* *
27460953 AATCGAGGGTAAAACAGTAATTTTGTA
1 AATCAAGGGTAAAATAGTAATTTTGTA
* * *
27460980 AATCAAGGGTAAAATAATAATTCTATA
1 AATCAAGGGTAAAATAGTAATTTTGTA
*
27461007 AATCGAGGGTA
1 AATCAAGGGTA
27461018 CTTTGATAAT
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.43, C:0.08, G:0.21, T:0.28
Consensus pattern (27 bp):
AATCAAGGGTAAAATAGTAATTTTGTA
Found at i:27463298 original size:33 final size:33
Alignment explanation
Indices: 27463255--27463354 Score: 95
Period size: 33 Copynumber: 3.1 Consensus size: 33
27463245 GTGAATAACA
* *
27463255 CAGTATCAGTACAATCTGGGCCAAAGCCCTATT
1 CAGTAACAGTACAATCTGGGCCTAAGCCCTATT
*
27463288 CAGTAACAGTA-AAGTCTGGGCCTTAGCCC--TT
1 CAGTAACAGTACAA-TCTGGGCCTAAGCCCTATT
*
27463319 -A--AACAGTAGCAATATGGGCCTAAGCCCTAATT
1 CAGTAACAGTA-CAATCTGGGCCTAAGCCCT-ATT
27463351 CAGT
1 CAGT
27463355 CTCGACATAT
Statistics
Matches: 53, Mismatches: 5, Indels: 16
0.72 0.07 0.22
Matches are distributed among these distances:
28 7 0.13
29 13 0.25
30 3 0.06
31 2 0.04
32 4 0.08
33 24 0.45
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (33 bp):
CAGTAACAGTACAATCTGGGCCTAAGCCCTATT
Found at i:27463403 original size:31 final size:31
Alignment explanation
Indices: 27463360--27463442 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
27463350 TCAGTCTCGA
*
27463360 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTAATAAAT
27463390 CATATCACTGGGCCGAAGCCTTTTAATAAAT
1 CATATCACTGGGCCGAAGCCTTTTAATAAAT
*
27463421 CATAGCACT-GGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
27463443 ACTGTAAGCG
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
30 18 0.36
31 32 0.64
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTAATAAAT
Found at i:27463681 original size:24 final size:25
Alignment explanation
Indices: 27463654--27463705 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
27463644 GCCTAGCCTC
*
27463654 TTTTAAT-AACTGGGGAAAAGCCCT
1 TTTTAATAAACTGAGGAAAAGCCCT
* *
27463678 TTTTGATAAACTGAGGCAAAGCCCT
1 TTTTAATAAACTGAGGAAAAGCCCT
27463703 TTT
1 TTT
27463706 CGGTCAACTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 6 0.25
25 18 0.75
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (25 bp):
TTTTAATAAACTGAGGAAAAGCCCT
Found at i:27463689 original size:25 final size:25
Alignment explanation
Indices: 27463661--27463729 Score: 75
Period size: 25 Copynumber: 2.8 Consensus size: 25
27463651 CTCTTTTAAT
*
27463661 AACTGGGGAAAAGCCCTTTTTGATA
1 AACTGGGGAAAAGCCCTTTTCGATA
* * * *
27463686 AACTGAGGCAAAGCCCTTTTCGGTC
1 AACTGGGGAAAAGCCCTTTTCGATA
* *
27463711 AACTGGGGTATAGCCCTTT
1 AACTGGGGAAAAGCCCTTT
27463730 CAGCACTTCC
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.28
Consensus pattern (25 bp):
AACTGGGGAAAAGCCCTTTTCGATA
Found at i:27464661 original size:27 final size:27
Alignment explanation
Indices: 27464631--27464809 Score: 103
Period size: 27 Copynumber: 6.6 Consensus size: 27
27464621 GTAAATCTAC
*
27464631 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* *
27464658 AAACCAATGGTATTTCTA-TAATTTTTAG
1 AAACCAAGGGTATTTC-AGTAA-TTTTAT
* * *
27464686 AAAGTCAAGGGTATTTCTA-TAATTGTGT
1 AAA-CCAAGGGTATTTC-AGTAATTTTAT
* * ** *
27464714 AAATCAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
*** * *
27464741 AAATTGAGGGTATTTCGGTAATTTCAT
1 AAACCAAGGGTATTTCAGTAATTTTAT
** *
27464768 AAACC-AGTGGTATTTTGGTAATTTTAC
1 AAACCAAG-GGTATTTCAGTAATTTTAT
* *
27464795 AAACTAGGGGTATTT
1 AAACCAAGGGTATTT
27464810 TGGTAATTAT
Statistics
Matches: 119, Mismatches: 27, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
26 2 0.02
27 86 0.72
28 15 0.13
29 16 0.13
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTAT
Found at i:27464780 original size:54 final size:52
Alignment explanation
Indices: 27464637--27464817 Score: 166
Period size: 54 Copynumber: 3.3 Consensus size: 52
27464627 CTACAAACCA
* * * * *
27464637 AGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCT-ATAATTTTTAGAAAGTCA
1 AGGGTATTTCGGTAA-TTTGTAAACCAGTGGTATTT-TGGTAA-TTTTACAAA-T-T
** * *
27464693 AGGGTATTTCTATAATTGTGTAAATCAGGGGTATTTTGGTAATTTTACAAATT
1 AGGGTATTTCGGTAATT-TGTAAACCAGTGGTATTTTGGTAATTTTACAAATT
* *
27464746 GAGGGTATTTCGGTAATTTCATAAACCAGTGGTATTTTGGTAATTTTACAAACT
1 -AGGGTATTTCGGTAATTT-GTAAACCAGTGGTATTTTGGTAATTTTACAAATT
*
27464800 AGGGGTATTTTGGTAATT
1 A-GGGTATTTCGGTAATT
27464818 ATAGCCTATA
Statistics
Matches: 105, Mismatches: 15, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
53 2 0.02
54 61 0.58
55 11 0.10
56 31 0.30
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.41
Consensus pattern (52 bp):
AGGGTATTTCGGTAATTTGTAAACCAGTGGTATTTTGGTAATTTTACAAATT
Found at i:27464810 original size:27 final size:27
Alignment explanation
Indices: 27464719--27464817 Score: 128
Period size: 27 Copynumber: 3.7 Consensus size: 27
27464709 TGTGTAAATC
27464719 AGGGGTATTTTGGTAATTTTACAAA-T
1 AGGGGTATTTTGGTAATTTTACAAACT
* * * * *
27464745 TGAGGGTATTTCGGTAATTTCATAAACC
1 AG-GGGTATTTTGGTAATTTTACAAACT
*
27464773 AGTGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACT
27464800 AGGGGTATTTTGGTAATT
1 AGGGGTATTTTGGTAATT
27464818 ATAGCCTATA
Statistics
Matches: 59, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
26 1 0.02
27 57 0.97
28 1 0.02
ACGTcount: A:0.28, C:0.07, G:0.23, T:0.41
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTACAAACT
Found at i:27468039 original size:17 final size:17
Alignment explanation
Indices: 27468017--27468053 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
27468007 CTATTTCTGA
27468017 CAGTTCTTGGGTAAGTC
1 CAGTTCTTGGGTAAGTC
27468034 CAGTTCTTGGGTAAGTC
1 CAGTTCTTGGGTAAGTC
27468051 CAG
1 CAG
27468054 GAAGTTGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.19, C:0.19, G:0.30, T:0.32
Consensus pattern (17 bp):
CAGTTCTTGGGTAAGTC
Found at i:27470946 original size:25 final size:25
Alignment explanation
Indices: 27470893--27470987 Score: 104
Period size: 25 Copynumber: 3.8 Consensus size: 25
27470883 TTTATCATAT
* *
27470893 AACTGGAGGCATAG-CCTCTTTTAAT-
1 AACTGG-GGCAAAGCCCT-TTTTGATA
27470918 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGATA
* *
27470943 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTTGATA
* *
27470968 AACTGGGGTATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
27470988 AGCACTTCCT
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
24 12 0.19
25 50 0.81
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.29
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTGATA
Found at i:27472873 original size:39 final size:40
Alignment explanation
Indices: 27472629--27472891 Score: 307
Period size: 40 Copynumber: 6.6 Consensus size: 40
27472619 TTGAATGCTG
* * * * * *
27472629 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
** * * * * *
27472669 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCAAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
27472709 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
27472749 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
27472789 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
27472829 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
27472868 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
27472892 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:27479683 original size:40 final size:40
Alignment explanation
Indices: 27479653--27479862 Score: 314
Period size: 40 Copynumber: 5.3 Consensus size: 40
27479643 GGACTAAGAT
* * * *
27479653 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
27479693 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
27479733 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* *
27479773 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* * * * *
27479813 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
27479852 CCGAAGGCATT
1 CCGAAGGCATT
27479863 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 34 0.21
40 125 0.79
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
Found at i:27479737 original size:80 final size:80
Alignment explanation
Indices: 27479600--27479862 Score: 316
Period size: 80 Copynumber: 3.3 Consensus size: 80
27479590 TTGAATGCTG
* * * * * **
27479600 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCCT
*
27479663 TTGTGCGAGATACTAAA
64 TTGTGCGAGTTACTAAA
* * *
27479680 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
27479745 GTGCGAGTTATTAAA
66 GTGCGAGTTACTAAA
* * * *
27479760 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGG-CATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
27479824 GTGTGAGTTACTAAA
66 GTGCGAGTTACTAAA
* *
27479839 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
27479863 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 22, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
79 36 0.23
80 117 0.74
81 6 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTT
GTGCGAGTTACTAAA
Found at i:27479814 original size:120 final size:120
Alignment explanation
Indices: 27479600--27479862 Score: 325
Period size: 120 Copynumber: 2.2 Consensus size: 120
27479590 TTGAATGCTG
* * *
27479600 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCCTT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
27479664 TGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
66 CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* * * * **
27479720 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* ** * *
27479783 TCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* *
27479839 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
27479863 TGAACGAGGA
Statistics
Matches: 122, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
119 35 0.29
120 81 0.66
121 6 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:27479882 original size:79 final size:80
Alignment explanation
Indices: 27479653--27479897 Score: 253
Period size: 80 Copynumber: 3.1 Consensus size: 80
27479643 GGACTAAGAT
* * * * * ** * *
27479653 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTA-TT
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAG-GAGCT
27479717 AAATCCGGGTTAAGTC
65 AAATCCGGGTTAAGTC
* * * ** ** *
27479733 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
27479798 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * *
27479813 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
27479877 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
27479891 CCGAAGG
1 CCGAAGG
27479898 TACGTGATTT
Statistics
Matches: 144, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
78 14 0.10
79 47 0.33
80 83 0.58
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:27482059 original size:27 final size:27
Alignment explanation
Indices: 27482029--27482114 Score: 95
Period size: 27 Copynumber: 3.1 Consensus size: 27
27482019 GTAAATCTAC
27482029 AAACCAAGGGTATTTC-AGTAATTTTGT
1 AAACCAAGGGTATTTCTA-TAATTTTGT
*
27482056 AAACCAATGGTATTTCTATAATTTT-T
1 AAACCAAGGGTATTTCTATAATTTTGT
* *
27482082 AGAAAGTCAAGGGTATTTCTATAATTGTGT
1 --AAA-CCAAGGGTATTTCTATAATTTTGT
27482112 AAA
1 AAA
27482115 TTAGGGGTAT
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
26 1 0.02
27 22 0.44
28 7 0.14
29 19 0.38
30 1 0.02
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.38
Consensus pattern (27 bp):
AAACCAAGGGTATTTCTATAATTTTGT
Found at i:27482133 original size:27 final size:27
Alignment explanation
Indices: 27482116--27482248 Score: 135
Period size: 27 Copynumber: 4.9 Consensus size: 27
27482106 TTGTGTAAAT
27482116 TAGGGGTATTTTGGTAATTTTACAAA-
1 TAGGGGTATTTTGGTAATTTTACAAAC
* * * *
27482142 TTGAGGGTATTTCGGTAATTTCATAAAC
1 TAG-GGGTATTTTGGTAATTTTACAAAC
**
27482170 TAGTCGTATTTTGGTAATTTTACAAAC
1 TAGGGGTATTTTGGTAATTTTACAAAC
* **
27482197 TAGGGGTATTTTGGTAATTCTACCCTA-
1 TAGGGGTATTTTGGTAATTTTA-CAAAC
* *
27482224 TAGGGGTATTTTAGTAATTTCACAA
1 TAGGGGTATTTTGGTAATTTTACAA
27482249 TCAAGGGTAA
Statistics
Matches: 84, Mismatches: 20, Indels: 6
0.76 0.18 0.05
Matches are distributed among these distances:
26 3 0.04
27 77 0.92
28 4 0.05
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (27 bp):
TAGGGGTATTTTGGTAATTTTACAAAC
Found at i:27482243 original size:54 final size:54
Alignment explanation
Indices: 27482111--27482215 Score: 149
Period size: 54 Copynumber: 1.9 Consensus size: 54
27482101 TATAATTGTG
* *
27482111 TAAATTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCA
1 TAAACTAGGGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCGGTAATTTCA
** *
27482165 TAAACTAGTCGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTGGTAATT
1 TAAACTAGGGGTATTTTGGTAATTTTACAAA-TAGAGGGTATTTCGGTAATT
27482216 CTACCCTATA
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
54 43 0.96
55 2 0.04
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.43
Consensus pattern (54 bp):
TAAACTAGGGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCGGTAATTTCA
Found at i:27482277 original size:27 final size:27
Alignment explanation
Indices: 27482247--27482364 Score: 157
Period size: 27 Copynumber: 4.4 Consensus size: 27
27482237 GTAATTTCAC
* **
27482247 AATCAAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACAGTAATTTTGTA
27482274 AATCGAGGGTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAACAGTAATTTTGTA
27482301 AATCGAGGGTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAACAGTAATTTTGTA
* * * * *
27482328 AATC-AAGGTAAAATAATAATTCTATA
1 AATCGAGGGTAAAACAGTAATTTTGTA
27482354 AATCGAGGGTA
1 AATCGAGGGTA
27482365 CTTTGGTAAT
Statistics
Matches: 81, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
26 21 0.26
27 60 0.74
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.30
Consensus pattern (27 bp):
AATCGAGGGTAAAACAGTAATTTTGTA
Found at i:27482377 original size:53 final size:54
Alignment explanation
Indices: 27482247--27482364 Score: 157
Period size: 53 Copynumber: 2.2 Consensus size: 54
27482237 GTAATTTCAC
* * * * *
27482247 AATCAAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTAAATCGAAGGTAAAACAATAATTCTATA
** *
27482301 AATCGAGGGTAAAACAGTAATTTTGTAAATC-AAGGTAAAATAATAATTCTATA
1 AATCGAGGGTAAAATGGTAATTTTGTAAATCGAAGGTAAAACAATAATTCTATA
27482354 AATCGAGGGTA
1 AATCGAGGGTA
27482365 CTTTGGTAAT
Statistics
Matches: 56, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
53 28 0.50
54 28 0.50
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.30
Consensus pattern (54 bp):
AATCGAGGGTAAAATGGTAATTTTGTAAATCGAAGGTAAAACAATAATTCTATA
Found at i:27485382 original size:9 final size:9
Alignment explanation
Indices: 27485368--27485395 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
27485358 CTTACTAAAT
27485368 AATCACTCA
1 AATCACTCA
27485377 AATCACTCA
1 AATCACTCA
27485386 AATCACTCA
1 AATCACTCA
27485395 A
1 A
27485396 GGTGTTTAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.46, C:0.32, G:0.00, T:0.21
Consensus pattern (9 bp):
AATCACTCA
Found at i:27488135 original size:54 final size:54
Alignment explanation
Indices: 27487967--27488118 Score: 250
Period size: 54 Copynumber: 2.8 Consensus size: 54
27487957 TTAGTTTACC
* *
27487967 AAATTACCAAAATACGCCTGGTTTGTAAAATTACTAAAATACTCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* *
27488021 AAATCACAAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* *
27488075 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCC
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCC
27488119 CTGATTTGTG
Statistics
Matches: 90, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 90 1.00
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
Found at i:27488141 original size:27 final size:27
Alignment explanation
Indices: 27487967--27488135 Score: 221
Period size: 27 Copynumber: 6.3 Consensus size: 27
27487957 TTAGTTTACC
*
27487967 AAATTACCAAAATACGCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
27487994 AAATTACTAAAATACTCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
27488021 AAATCACAAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
27488048 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
27488075 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
27488102 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
27488129 AAATTAC
1 AAATTAC
27488136 TGAAATTGTA
Statistics
Matches: 122, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 122 1.00
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:27490891 original size:27 final size:27
Alignment explanation
Indices: 27490861--27490917 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
27490851 GTACGGGGCG
*
27490861 TTATAGAAATACCCTCGACCTGTAAAA
1 TTATAGAAATACCCTCAACCTGTAAAA
* *
27490888 TTATTGAAATACCCTCAACTTGTAAAA
1 TTATAGAAATACCCTCAACCTGTAAAA
27490915 TTA
1 TTA
27490918 CCGAAGTACC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (27 bp):
TTATAGAAATACCCTCAACCTGTAAAA
Found at i:27490927 original size:27 final size:27
Alignment explanation
Indices: 27490866--27490929 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 27
27490856 GGGCGTTATA
* **
27490866 GAAATACCCTCGACCTGTAAAATTATT
1 GAAATACCCTCAACCTGTAAAATTACC
*
27490893 GAAATACCCTCAACTTGTAAAATTACC
1 GAAATACCCTCAACCTGTAAAATTACC
*
27490920 GAAGTACCCT
1 GAAATACCCT
27490930 TGATTTACAG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.38, C:0.25, G:0.11, T:0.27
Consensus pattern (27 bp):
GAAATACCCTCAACCTGTAAAATTACC
Found at i:27490943 original size:27 final size:27
Alignment explanation
Indices: 27490911--27490976 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
27490901 CTCAACTTGT
*
27490911 AAAATTACCGAAGTACCCTTGATTTAC
1 AAAATTACCGAAGTACCCTCGATTTAC
* * ***
27490938 AGAATTATCGTTTTACCCTCGATTTAC
1 AAAATTACCGAAGTACCCTCGATTTAC
27490965 AAAATTACCGAA
1 AAAATTACCGAA
27490977 ATATCCCTGT
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.36, C:0.21, G:0.11, T:0.32
Consensus pattern (27 bp):
AAAATTACCGAAGTACCCTCGATTTAC
Found at i:27491000 original size:23 final size:23
Alignment explanation
Indices: 27490970--27491015 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
27490960 TTTACAAAAT
27490970 TACCGAAATATCCCTGTAGGGTA
1 TACCGAAATATCCCTGTAGGGTA
27490993 TACCGAAATATCCCTGTAGGGTA
1 TACCGAAATATCCCTGTAGGGTA
27491016 GAATTACTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (23 bp):
TACCGAAATATCCCTGTAGGGTA
Found at i:27491028 original size:27 final size:27
Alignment explanation
Indices: 27490967--27491158 Score: 184
Period size: 27 Copynumber: 7.3 Consensus size: 27
27490957 CGATTTACAA
27490967 AATTACCGAAATATCCCTGTAGGGT--
1 AATTACCGAAATATCCCTGTAGGGTAG
27490992 -A-TACCGAAATATCCCTGTAGGGTAG
1 AATTACCGAAATATCCCTGTAGGGTAG
** *
27491017 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATATCCCTGTAGGGTAG
* *
27491044 AATTACCGAAATA-CCCTTATAGAGTAG
1 AATTACCGAAATATCCC-TGTAGGGTAG
* *
27491071 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATATCCCTGTAGGGTAG
* * *
27491098 GATTACTGAAATAAT-CCTGTAAGGTAG
1 AATTACCGAAAT-ATCCCTGTAGGGTAG
* *
27491125 AATTACCGAGATA-CCCT-TATGGGGTAA
1 AATTACCGAAATATCCCTGTA--GGGTAG
27491152 AATTACC
1 AATTACC
27491159 ATTTTACCCC
Statistics
Matches: 137, Mismatches: 20, Indels: 18
0.78 0.11 0.10
Matches are distributed among these distances:
23 22 0.16
24 1 0.01
25 2 0.01
26 8 0.06
27 100 0.73
28 4 0.03
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATATCCCTGTAGGGTAG
Found at i:27491169 original size:81 final size:81
Alignment explanation
Indices: 27490992--27491144 Score: 243
Period size: 81 Copynumber: 1.9 Consensus size: 81
27490982 CCTGTAGGGT
* * *
27490992 ATACCGAAATATCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACCGAAATA
1 ATACCGAAATACCCCTGTAGGGTAGAATTACTAAAATAACCCTGTAAGGTAGAATTACCGAAATA
27491057 CCCTTATAGAGTAGAA
66 CCCTTATAGAGTAGAA
* * * *
27491073 ATACCGAAATACCCCTGTAGGGTAGGATTACTGAAATAATCCTGTAAGGTAGAATTACCGAGATA
1 ATACCGAAATACCCCTGTAGGGTAGAATTACTAAAATAACCCTGTAAGGTAGAATTACCGAAATA
27491138 CCCTTAT
66 CCCTTAT
27491145 GGGGTAAAAT
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 65 1.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (81 bp):
ATACCGAAATACCCCTGTAGGGTAGAATTACTAAAATAACCCTGTAAGGTAGAATTACCGAAATA
CCCTTATAGAGTAGAA
Found at i:27491447 original size:27 final size:26
Alignment explanation
Indices: 27491403--27491453 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
27491393 CTCGCTGCCA
*
27491403 TCTGGTGGCCTCGCCACATATATCTAT
1 TCTGGTGACCTCGCCACA-ATATCTAT
* *
27491430 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACCTCGCCACAATATCT
27491454 GGTAACCTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTAT
Found at i:27491581 original size:6 final size:6
Alignment explanation
Indices: 27491572--27491743 Score: 113
Period size: 6 Copynumber: 27.8 Consensus size: 6
27491562 TTGCATTCAC
* *
27491572 ATTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG -TTACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATT--CTG
*
27491622 ATTCTG ATTCTTG -TTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG
1 ATTCTG ATTC-TG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG
* * * * *
27491671 ATTCTG -TTACCTA ATCCTG ATTCTG ATTTTG ATTTTG ATTCTG -TCACCTG
1 ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG
* *
27491721 ATTCTG ATTCTC ATTTTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATTCT
27491744 AGTTCTAATA
Statistics
Matches: 131, Mismatches: 18, Indels: 34
0.72 0.10 0.19
Matches are distributed among these distances:
5 11 0.08
6 99 0.76
7 15 0.11
8 6 0.05
ACGTcount: A:0.18, C:0.19, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:27491603 original size:19 final size:19
Alignment explanation
Indices: 27491600--27491731 Score: 110
Period size: 19 Copynumber: 6.7 Consensus size: 19
27491590 TTACCTGATA
27491600 CTGATTCTGATTCTGTTAC
1 CTGATTCTGATTCTGTTAC
*
27491619 CTAATTCTGATTCTTGTT--
1 CTGATTCTGATTC-TGTTAC
27491637 CTGATTCTGATTCTGTTACC
1 CTGATTCTGATTCTGTTA-C
27491657 TGATACTGATTCTGATTCTGTTAC
1 -----CTGATTCTGATTCTGTTAC
* *
27491681 CTAATCCTGATTCTGATT--
1 CTGATTCTGATTCTG-TTAC
* * *
27491699 TTGATTTTGATTCTGTCAC
1 CTGATTCTGATTCTGTTAC
27491718 CTGATTCTGATTCT
1 CTGATTCTGATTCT
27491732 CATTTTGATT
Statistics
Matches: 90, Mismatches: 11, Indels: 24
0.72 0.09 0.19
Matches are distributed among these distances:
17 5 0.06
18 23 0.26
19 37 0.41
20 6 0.07
24 1 0.01
25 18 0.20
ACGTcount: A:0.17, C:0.20, G:0.14, T:0.48
Consensus pattern (19 bp):
CTGATTCTGATTCTGTTAC
Found at i:27491639 original size:25 final size:25
Alignment explanation
Indices: 27491572--27491632 Score: 104
Period size: 25 Copynumber: 2.4 Consensus size: 25
27491562 TTGCATTCAC
*
27491572 ATTCTGATTCTGATTCTGTTACCTG
1 ATTCTGATTCTGATTCTGTTACCTA
*
27491597 ATACTGATTCTGATTCTGTTACCTA
1 ATTCTGATTCTGATTCTGTTACCTA
27491622 ATTCTGATTCT
1 ATTCTGATTCT
27491633 TGTTCTGATT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.20, C:0.20, G:0.13, T:0.48
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTGTTACCTA
Found at i:27491667 original size:25 final size:25
Alignment explanation
Indices: 27491637--27491698 Score: 106
Period size: 25 Copynumber: 2.5 Consensus size: 25
27491627 GATTCTTGTT
*
27491637 CTGATTCTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTTACCTAATA
*
27491662 CTGATTCTGATTCTGTTACCTAATC
1 CTGATTCTGATTCTGTTACCTAATA
27491687 CTGATTCTGATT
1 CTGATTCTGATT
27491699 TTGATTTTGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.19, C:0.21, G:0.15, T:0.45
Consensus pattern (25 bp):
CTGATTCTGATTCTGTTACCTAATA
Found at i:27491670 original size:62 final size:62
Alignment explanation
Indices: 27491572--27491731 Score: 259
Period size: 62 Copynumber: 2.6 Consensus size: 62
27491562 TTGCATTCAC
*
27491572 ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTCTTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATCCTGATTC-TG
27491635 -TTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATCCTGATTCTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATCCTGATTCTG
* * * *
27491696 ATTTTGATTTTGATTCTGTCACCTGATTCTGATTCT
1 ATTCTGATTCTGATTCTGTTACCTGATACTGATTCT
27491732 CATTTTGATT
Statistics
Matches: 91, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
61 2 0.02
62 89 0.98
ACGTcount: A:0.18, C:0.19, G:0.14, T:0.48
Consensus pattern (62 bp):
ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATCCTGATTCTG
Found at i:27491676 original size:37 final size:37
Alignment explanation
Indices: 27491594--27491676 Score: 123
Period size: 37 Copynumber: 2.2 Consensus size: 37
27491584 ATTCTGTTAC
* *
27491594 CTGATACTGATTCTGATTCTGTTACCTAATTCTGATT
1 CTGATTCTGATTCTGATTCTGTTACCTAATACTGATT
*
27491631 CTTG-TTCTGATTCTGATTCTGTTACCTGATACTGATT
1 C-TGATTCTGATTCTGATTCTGTTACCTAATACTGATT
27491668 CTGATTCTG
1 CTGATTCTG
27491677 TTACCTAATC
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
36 2 0.05
37 37 0.90
38 2 0.05
ACGTcount: A:0.18, C:0.19, G:0.16, T:0.47
Consensus pattern (37 bp):
CTGATTCTGATTCTGATTCTGTTACCTAATACTGATT
Found at i:27491737 original size:37 final size:37
Alignment explanation
Indices: 27491663--27491743 Score: 117
Period size: 37 Copynumber: 2.2 Consensus size: 37
27491653 TACCTGATAC
* *
27491663 TGATTCTGATTCTGTTACCTAATCCTGATTCTGATTT
1 TGATTCTGATTCTGTCACCTAATCCTGATTCTCATTT
* * *
27491700 TGATTTTGATTCTGTCACCTGATTCTGATTCTCATTT
1 TGATTCTGATTCTGTCACCTAATCCTGATTCTCATTT
27491737 TGATTCT
1 TGATTCT
27491744 AGTTCTAATA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.17, C:0.19, G:0.14, T:0.51
Consensus pattern (37 bp):
TGATTCTGATTCTGTCACCTAATCCTGATTCTCATTT
Found at i:27509404 original size:46 final size:46
Alignment explanation
Indices: 27509344--27509521 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
27509334 GATATTTGGG
27509344 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
* *** * * * *
27509390 TC-TCCGAACACGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGG
1 -CATCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGA-A
*
27509437 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
* *
27509483 CACCCGAGCT-GATTGAGTTGAGTCCGAGTTCACTTATGG
1 CATCCGAACTCG-TTGAGTTGAGTCCGAGTTCACTTATGG
27509522 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 18, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
45 1 0.01
46 72 0.67
47 35 0.32
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (46 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
Found at i:27509501 original size:93 final size:93
Alignment explanation
Indices: 27509342--27509513 Score: 276
Period size: 93 Copynumber: 1.8 Consensus size: 93
27509332 AGGATATTTG
*
27509342 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATCTCCGAACACGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATCCCCGAACACGTTGAG
27509407 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
27509435 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-CACCCGAGC-TGATTG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATC-CCCGAACACG-TTG
27509498 AGTTGAGTCCGAGTTC
64 AGTTGAGTCCGAGTTC
27509514 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATCCCCGAACACGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:27515410 original size:29 final size:29
Alignment explanation
Indices: 27515368--27515426 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
27515358 TAAGTACATA
*
27515368 TTAGAGTGGGAATTTGATGTTTCCGTAGG
1 TTAGAGTGGGAATTCGATGTTTCCGTAGG
27515397 TTAGAGTGGGAATTCGATGTTTCCGTAGG
1 TTAGAGTGGGAATTCGATGTTTCCGTAGG
27515426 T
1 T
27515427 AAATAAATGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.20, C:0.08, G:0.34, T:0.37
Consensus pattern (29 bp):
TTAGAGTGGGAATTCGATGTTTCCGTAGG
Found at i:27516010 original size:53 final size:53
Alignment explanation
Indices: 27515831--27516034 Score: 171
Period size: 53 Copynumber: 3.8 Consensus size: 53
27515821 ATTAGGGTTT
* * *
27515831 AAGGATACCAAGTAAGACCATGCCAAGGCATTG-CATTGGTAAGTTTTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGCA-TGACAATGGTAAG-TTCACAAGGC
* * * * * * * *
27515885 AAGGAAATCATGTAAGACCATGTCAAGAG-ATGGCATTGATAAACTATGACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAG-GCATGACAATGGT-AAGT-TCACAAGGC
* * * *
27515940 AAAGATCCCATGTAAGACCATGCCAAGGCATGACAATGGTTAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGCATGACAATGGTAAGTTCACAAGGC
* * *
27515993 AAGGATACCACGTAAGACCATGTCAAGACATGGA-AATGGTAA
1 AAGGATACCATGTAAGACCATGCCAAGGCAT-GACAATGGTAA
27516035 CTTTAAAAAG
Statistics
Matches: 119, Mismatches: 25, Indels: 13
0.76 0.16 0.08
Matches are distributed among these distances:
53 42 0.35
54 36 0.30
55 41 0.34
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.20
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGGCATGACAATGGTAAGTTCACAAGGC
Found at i:27521864 original size:46 final size:45
Alignment explanation
Indices: 27521732--27521945 Score: 161
Period size: 46 Copynumber: 4.6 Consensus size: 45
27521722 TGCATGAGCT
* * **
27521732 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GACAAG-GCC
* * * * *
27521778 AGTGTAAGACCATG-CTTGGGATATGGCATCTGCATTGAGACAAGTGCT
1 AGTGTAAGA-CATGTC-TGGGACAT-GCATCGGCCTCGAGACAAG-GCC
*
27521826 AATGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACTTAA-GCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGAC--AAGGCC
* *
27521872 AGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAG--ATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGACAAG-GCC
*
27521916 AGTGTAAGATCATATCTGGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
27521946 AGCACAGATA
Statistics
Matches: 136, Mismatches: 20, Indels: 24
0.76 0.11 0.13
Matches are distributed among these distances:
42 1 0.01
44 11 0.08
45 15 0.11
46 63 0.46
47 22 0.16
48 23 0.17
49 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACAAGGCC
Found at i:27522009 original size:50 final size:51
Alignment explanation
Indices: 27521934--27522044 Score: 172
Period size: 50 Copynumber: 2.2 Consensus size: 51
27521924 ATCATATCTG
27521934 GGACATGGCA-TCAGCACAGATATGCTACAGCTTGTGCAAGACCATGTCTA
1 GGACATGGCATTCAGCACAGATATGCTACAGCTTGTGCAAGACCATGTCTA
* * * *
27521984 GGACATGGCATTC-GCACAGATATGCTAGAGCTTGTGTAAGACCGTGTCTG
1 GGACATGGCATTCAGCACAGATATGCTACAGCTTGTGCAAGACCATGTCTA
27522034 GGACATGGCAT
1 GGACATGGCAT
27522045 CGGCACTTGC
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
50 54 0.96
51 2 0.04
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (51 bp):
GGACATGGCATTCAGCACAGATATGCTACAGCTTGTGCAAGACCATGTCTA
Found at i:27534415 original size:46 final size:45
Alignment explanation
Indices: 27534278--27534453 Score: 160
Period size: 46 Copynumber: 3.8 Consensus size: 45
27534268 TCACTTACGT
* * * *
27534278 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAT-ATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATTGGCC-TGA-GACGA
* * *
27534324 GAGCCAGTGTAAGACCATGTTTGGGATATGACATTGGCATTGAGACGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACATG-CATTGGC-CTGAGACGA
* * *
27534372 GTGCTAGTGTAAGACATGTCTGGGACATGCATTGACCTCGAGACGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATTGGCCT-GAGACG-A
*
27534419 -AGCCAGTGTAAGACATATCTAGGG-CATGCATTGGC
1 GAGCCAGTGTAAGACATGTCT-GGGACATGCATTGGC
27534454 TACAAGATGT
Statistics
Matches: 106, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
45 1 0.01
46 52 0.49
47 30 0.28
48 22 0.21
49 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.25
Consensus pattern (45 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATTGGCCTGAGACGA
Found at i:27539608 original size:43 final size:43
Alignment explanation
Indices: 27539548--27539631 Score: 132
Period size: 43 Copynumber: 2.0 Consensus size: 43
27539538 TATATGTGGT
**
27539548 ATCCGAGCTCGTCGAGTGGTCCGAGTTCATTGTGGATGCGAGC
1 ATCCGAGCTCGTCGAGTGGTCCGAGTTCATAATGGATGCGAGC
* *
27539591 ATCCGAGCTTGTTGAGTGGTCCGAGTTCATAATGGATGCGA
1 ATCCGAGCTCGTCGAGTGGTCCGAGTTCATAATGGATGCGA
27539632 TACATGTGAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.19, C:0.20, G:0.33, T:0.27
Consensus pattern (43 bp):
ATCCGAGCTCGTCGAGTGGTCCGAGTTCATAATGGATGCGAGC
Found at i:27550399 original size:15 final size:14
Alignment explanation
Indices: 27550362--27550396 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
27550352 GATAAATTAA
*
27550362 AAAATTAAATGTTT
1 AAAATTAAATATTT
27550376 AAGAATTAAATATTT
1 AA-AATTAAATATTT
27550391 AAAATT
1 AAAATT
27550397 TAAGTATTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (14 bp):
AAAATTAAATATTT
Found at i:27550720 original size:26 final size:26
Alignment explanation
Indices: 27550664--27550720 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
27550654 AAGGTTATTG
* *
27550664 GTATTTTAAAAATTATAAAATAATTA
1 GTATTTTAAAAATAATAAAATAATAA
* *
27550690 TTATTTTAAAAATAATTAATATAA-AA
1 GTATTTTAAAAATAA-TAAAATAATAA
27550716 GTATT
1 GTATT
27550721 CAAAATATCA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
26 18 0.72
27 7 0.28
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.44
Consensus pattern (26 bp):
GTATTTTAAAAATAATAAAATAATAA
Found at i:27553343 original size:20 final size:20
Alignment explanation
Indices: 27553314--27553358 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
27553304 AGCACATGTA
* *
27553314 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
27553334 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
27553354 TTCAT
1 TTCAT
27553359 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:27555828 original size:28 final size:27
Alignment explanation
Indices: 27555774--27555922 Score: 226
Period size: 27 Copynumber: 5.4 Consensus size: 27
27555764 ATTGTGCAGG
* *
27555774 ACTAAGTGTGCGAATTGAATATGTAGC
1 ACTAAGTGTGCGAGTTGACTATGTAGC
27555801 ACTAAGTGTGCGAGTTTGACTATGTAGC
1 ACTAAGTGTGCGAG-TTGACTATGTAGC
27555829 ACTAAGTGTGCGAGTTGACTATGTAGC
1 ACTAAGTGTGCGAGTTGACTATGTAGC
*
27555856 ACTAAGTGTGCGAGTATGATTATGTAGC
1 ACTAAGTGTGCGAGT-TGACTATGTAGC
* *
27555884 ACTAAGTGTGCGAGTTGATTATATAGC
1 ACTAAGTGTGCGAGTTGACTATGTAGC
*
27555911 ACTGAGTGTGCG
1 ACTAAGTGTGCG
27555923 GACTTAATAA
Statistics
Matches: 115, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 63 0.55
28 52 0.45
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.31
Consensus pattern (27 bp):
ACTAAGTGTGCGAGTTGACTATGTAGC
Found at i:27555839 original size:55 final size:55
Alignment explanation
Indices: 27555774--27555922 Score: 235
Period size: 55 Copynumber: 2.7 Consensus size: 55
27555764 ATTGTGCAGG
* *
27555774 ACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGC
1 ACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGTAGC
* *
27555829 ACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGTAGC
1 ACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGTAGC
* * *
27555884 ACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 ACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCG
27555923 GACTTAATAA
Statistics
Matches: 87, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 87 1.00
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.31
Consensus pattern (55 bp):
ACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGTAGC
Found at i:27561368 original size:48 final size:48
Alignment explanation
Indices: 27561297--27561465 Score: 198
Period size: 48 Copynumber: 3.6 Consensus size: 48
27561287 TGATACGTGT
*
27561297 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCCTCGAGATATAAAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATAAAA
* * * * * ** *
27561345 GCTAGTGTGAGACATGTTTGGGACATGCATCGACATTGAG--ACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATAAAA
* * *
27561391 GCTAGTGTAAGACATGTCTGTGACATGCATCAGCCTCGAGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATAAAA
* *
27561439 GCTAGTGTAAGACCTGTCTGAGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
27561466 GCGTCAGCTT
Statistics
Matches: 99, Mismatches: 20, Indels: 4
0.80 0.16 0.03
Matches are distributed among these distances:
46 36 0.36
48 63 0.64
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.25
Consensus pattern (48 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATAAAA
Found at i:27565041 original size:27 final size:27
Alignment explanation
Indices: 27565011--27565241 Score: 257
Period size: 27 Copynumber: 8.5 Consensus size: 27
27565001 AAATTGTACA
27565011 GCACTAAGTGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGATTTGACTATGTT
* * *
27565038 GCACTAAGTGTGCGAATTGACCATGCT
1 GCACTAAGTGTGCGATTTGACTATGTT
27565065 GCACTAAGTGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGATTTGACTATGTT
** *
27565092 GCACTAAGTGTGCGAAATGAAC-ATGAT
1 GCACTAAGTGTGCGATTTG-ACTATGTT
* * **
27565119 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGATTTGACTATGTT
* *
27565146 GCACTAAGTGTGCGAGTTTGACTGTGTA
1 GCACTAAGTGTGCGA-TTTGACTATGTT
* * *
27565174 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGATTTGACTATGTT
* * * *
27565201 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGATTTGACTATGTT
*
27565228 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
27565242 GACTCGATAT
Statistics
Matches: 177, Mismatches: 24, Indels: 6
0.86 0.12 0.03
Matches are distributed among these distances:
26 2 0.01
27 151 0.85
28 24 0.14
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
GCACTAAGTGTGCGATTTGACTATGTT
Found at i:27565122 original size:81 final size:82
Alignment explanation
Indices: 27565010--27565220 Score: 284
Period size: 81 Copynumber: 2.6 Consensus size: 82
27565000 TAAATTGTAC
** * *
27565010 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAATTGACCATGCTGCACTAAGTG
1 AGCACTAAGTGTGCGAAATGACTATGATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTG
27565075 TGCGA-TTTGACTATGT
66 TGCGAGTTTGACTATGT
*
27565091 TGCACTAAGTGTGCGAAATGAAC-ATGATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGT
1 AGCACTAAGTGTGCGAAATG-ACTATGATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGT
*
27565155 GTGCGAGTTTGACTGTGT
65 GTGCGAGTTTGACTATGT
** * * *
27565173 AGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAGTGTGCGAGTTGA
1 AGCACTAAGTGTGCGAAATGACTATGAT-GCACTAAGTGTGCGAATTGA
27565221 TTATATAGCA
Statistics
Matches: 114, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
81 64 0.56
82 50 0.44
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (82 bp):
AGCACTAAGTGTGCGAAATGACTATGATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTG
TGCGAGTTTGACTATGT
Found at i:27565252 original size:27 final size:27
Alignment explanation
Indices: 27565172--27565249 Score: 84
Period size: 27 Copynumber: 2.9 Consensus size: 27
27565162 TTTGACTGTG
* * **
27565172 TAGCACTAAGTGTGCGATTTGATTACG
1 TAGCACTAAGTGTGCGACTCGATTATA
* *
27565199 TAGCACTAAGTGTGCGAGTTGATTATA
1 TAGCACTAAGTGTGCGACTCGATTATA
*
27565226 TAGCACTGAGTGTGCGGACTCGAT
1 TAGCACTAAGTGTGC-GACTCGAT
27565250 ATACATTCGT
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 38 0.86
28 6 0.14
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
TAGCACTAAGTGTGCGACTCGATTATA
Found at i:27572731 original size:27 final size:27
Alignment explanation
Indices: 27572701--27572958 Score: 268
Period size: 27 Copynumber: 9.5 Consensus size: 27
27572691 AAATTGTACA
*
27572701 GCACTAAGTGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGAATTGACTATGTT
* *
27572728 GCACTAAGTGTGCGAAATGAAC-ATGAT
1 GCACTAAGTGTGCGAATTG-ACTATGTT
* **
27572755 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTT
*
27572782 GCACTAAGTGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGAATTGACTATGTT
* *
27572809 GCACTAAGTGTGCGAAATGAAC-ATGAT
1 GCACTAAGTGTGCGAATTG-ACTATGTT
* **
27572836 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTT
* *
27572863 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGA-ATTGACTATGTT
* * * *
27572891 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAATTGACTATGTT
* * * *
27572918 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAATTGACTATGTT
*
27572945 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
27572959 GACTCGATAT
Statistics
Matches: 200, Mismatches: 26, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
26 4 0.02
27 169 0.85
28 27 0.14
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTT
Found at i:27572836 original size:81 final size:81
Alignment explanation
Indices: 27572701--27572905 Score: 392
Period size: 81 Copynumber: 2.5 Consensus size: 81
27572691 AAATTGTACA
27572701 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAACATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAACATGATGCACTAAGTGT
27572766 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
27572782 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAACATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAACATGATGCACTAAGTGT
27572847 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
*
27572863 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGA
1 GCACTAAGTGTGCGA-TTTGACTATGTTGCACTAAGTGTGCGA
27572906 TTTGATTACG
Statistics
Matches: 122, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
81 96 0.79
82 26 0.21
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAACATGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:27577785 original size:19 final size:20
Alignment explanation
Indices: 27577757--27577800 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
27577747 AGCACATGTA
*
27577757 TTCATAAAATTTTAGAA-TT
1 TTCATAAAATTTTACAACTT
*
27577776 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
27577796 TTCAT
1 TTCAT
27577801 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.36, C:0.14, G:0.02, T:0.48
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:27582648 original size:48 final size:48
Alignment explanation
Indices: 27582587--27582754 Score: 198
Period size: 48 Copynumber: 3.6 Consensus size: 48
27582577 TGATACGTGT
27582587 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATAAAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATAAAA
* * * * * ** *
27582635 GCTAGTGTGAGACATGTTTGGGACATGCATCGACATTGAG--ACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATAAAA
* *
27582681 GCTAGTGTAAGACATGTCT-GGACATGCATCAGCCTCGAGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATAAAA
* * *
27582728 GCTAGTGTAAGACCTGACTGAGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
27582755 GCGTCAGCTT
Statistics
Matches: 96, Mismatches: 21, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
45 16 0.17
46 20 0.21
47 19 0.20
48 41 0.43
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.23
Consensus pattern (48 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATAAAA
Found at i:27583964 original size:12 final size:12
Alignment explanation
Indices: 27583947--27583971 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27583937 GCTGTGTGAG
27583947 GGACACGGGCAT
1 GGACACGGGCAT
27583959 GGACACGGGCAT
1 GGACACGGGCAT
27583971 G
1 G
27583972 TGTCAGGCTG
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:0.24, C:0.24, G:0.44, T:0.08
Consensus pattern (12 bp):
GGACACGGGCAT
Found at i:27583966 original size:40 final size:41
Alignment explanation
Indices: 27583908--27583986 Score: 110
Period size: 40 Copynumber: 2.0 Consensus size: 41
27583898 AAGGTTTTTA
27583908 GACACGGGCTAAGGCACGGGCATGT-T-ATGGCTGTGTGAGG
1 GACACGGGCTAAGGCACGGGCATGTGTCA-GGCTGTGTGAGG
*
27583948 GACACGGGC-ATGGACACGGGCATGTGTCAGGCTGTGTGA
1 GACACGGGCTAAGG-CACGGGCATGTGTCAGGCTGTGTGA
27583987 AAACCCCTGT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
39 3 0.09
40 20 0.57
41 11 0.31
42 1 0.03
ACGTcount: A:0.20, C:0.19, G:0.42, T:0.19
Consensus pattern (41 bp):
GACACGGGCTAAGGCACGGGCATGTGTCAGGCTGTGTGAGG
Found at i:27588202 original size:20 final size:20
Alignment explanation
Indices: 27588173--27588217 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
27588163 AGCACATGTA
* *
27588173 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
27588193 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
27588213 TTCAT
1 TTCAT
27588218 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:27593060 original size:47 final size:47
Alignment explanation
Indices: 27593006--27593173 Score: 194
Period size: 46 Copynumber: 3.6 Consensus size: 47
27592996 TGATACGTGT
27593006 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAATATAAAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAATATAAAA
* * * * * * ** *
27593053 GCTAGTGTGAGACATGTTTGGGACATGCATCGACATTG-AGACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAATATAAAA
* *
27593099 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-ATATAAAA
* * *
27593147 GCTAGTGTAAGACCTGACTGAGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
27593174 GCGTCAGCTT
Statistics
Matches: 96, Mismatches: 23, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
46 36 0.38
47 33 0.34
48 27 0.28
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.23
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAATATAAAA
Found at i:27593208 original size:93 final size:92
Alignment explanation
Indices: 27593000--27593218 Score: 255
Period size: 93 Copynumber: 2.4 Consensus size: 92
27592990 ATTGGGTGAT
* *
27593000 ACGTGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAATATAAAAGCTAGTGTGAGA
1 ACGTGTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAATATAAAAGCTAGTGTAAGA
** *
27593065 CATGTTTGGGACATGCATCGACATTGAG
66 CATGACTGAGACATGCATCGACATT-AG
* * *
27593093 ACGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATACAAGCTAGTGTAAG
1 ACGTGTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGA-ATATAAAAGCTAGTGTAAG
* *
27593158 ACCTGACTGAGACATGGCGTC-AGC-TT-G
65 ACATGACTGAGACAT-GCATCGA-CATTAG
** *
27593185 TTGTGTGTTAGTGTAAGACCATGTCTGGGACATG
1 ACGTGTGCTAGTGTAAGA-CATGTCTGGGACATG
27593219 ACGTCGGCAT
Statistics
Matches: 107, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
92 14 0.13
93 57 0.53
94 31 0.29
95 5 0.05
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (92 bp):
ACGTGTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAATATAAAAGCTAGTGTAAGA
CATGACTGAGACATGCATCGACATTAG
Found at i:27607599 original size:20 final size:20
Alignment explanation
Indices: 27607570--27607614 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
27607560 AGCACATGTA
* *
27607570 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
27607590 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
27607610 TTCAT
1 TTCAT
27607615 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:27612457 original size:48 final size:48
Alignment explanation
Indices: 27612396--27612564 Score: 207
Period size: 48 Copynumber: 3.6 Consensus size: 48
27612386 TGATACGTGT
27612396 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATAAAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATAAAA
* * * * * ** *
27612444 GCTAGTGTGAGACATGTTTGGGACATGCATCGACATTGAG--ACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATAAAA
* *
27612490 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATAAAA
* * *
27612538 GCTAGTGTAAGACCTGACTGAGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
27612565 GCGTCAGCTT
Statistics
Matches: 98, Mismatches: 21, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
46 37 0.38
48 61 0.62
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.23
Consensus pattern (48 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATAAAA
Found at i:27618691 original size:24 final size:24
Alignment explanation
Indices: 27618597--27618684 Score: 131
Period size: 24 Copynumber: 3.7 Consensus size: 24
27618587 GATTCAACTC
* * * *
27618597 CGCACACATAGTGCCAAATAATTC
1 CGCACACATAGTGCCATACAAATA
*
27618621 CGCACACATAGTGCCATACATATA
1 CGCACACATAGTGCCATACAAATA
27618645 CGCACACATAGTGCCATACAAATA
1 CGCACACATAGTGCCATACAAATA
27618669 CGCACACATAGTGCCA
1 CGCACACATAGTGCCA
27618685 CTCAAATCTG
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 58 1.00
ACGTcount: A:0.38, C:0.31, G:0.14, T:0.18
Consensus pattern (24 bp):
CGCACACATAGTGCCATACAAATA
Found at i:27621572 original size:46 final size:46
Alignment explanation
Indices: 27621518--27621784 Score: 374
Period size: 46 Copynumber: 5.8 Consensus size: 46
27621508 CTATGATAGA
27621518 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
* *
27621564 AAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATGTG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
27621610 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
* ***
27621656 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACGGGG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGA-TATG
** * * *
27621703 AAATGAATAAGACCATGGTTGAATGATACCATGGCAACATGACA-G
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
* * * *
27621748 AAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 -AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
27621785 TCATGTCGAA
Statistics
Matches: 200, Mismatches: 19, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
45 1 0.00
46 160 0.80
47 39 0.19
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.21
Consensus pattern (46 bp):
AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
Found at i:27631834 original size:43 final size:44
Alignment explanation
Indices: 27631753--27631908 Score: 155
Period size: 43 Copynumber: 3.6 Consensus size: 44
27631743 TGTATTATCG
* *
27631753 TGTAAGACCACGTCTAGGACGTTGGCTTCGACTA--TGATTTACG
1 TGTAAGACCACGTCTAGGACGTTGGCATCGA-TATTTGATTTACA
* *
27631796 TGTAAGACCACGTTTGGGACGTTGGCATC-ATATTTGATTT-CA
1 TGTAAGACCACGTCTAGGACGTTGGCATCGATATTTGATTTACA
* * *
27631838 TGTAAGACC-CTGTCTGGGATAG-TGGTATCGATATTTGA-TTACA
1 TGTAAGACCAC-GTCTAGGA-CGTTGGCATCGATATTTGATTTACA
* *
27631881 TGTAAGACCATGTCTAGGATGTTGGCAT
1 TGTAAGACCACGTCTAGGACGTTGGCAT
27631909 TGTACGAGCT
Statistics
Matches: 94, Mismatches: 11, Indels: 16
0.78 0.09 0.13
Matches are distributed among these distances:
41 3 0.03
42 27 0.29
43 64 0.68
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (44 bp):
TGTAAGACCACGTCTAGGACGTTGGCATCGATATTTGATTTACA
Found at i:27633812 original size:27 final size:27
Alignment explanation
Indices: 27633747--27633815 Score: 129
Period size: 27 Copynumber: 2.6 Consensus size: 27
27633737 TTCATATTTA
*
27633747 AATGGACTCAACTTATGTCCTAGGCTT
1 AATGGACTCAATTTATGTCCTAGGCTT
27633774 AATGGACTCAATTTATGTCCTAGGCTT
1 AATGGACTCAATTTATGTCCTAGGCTT
27633801 AATGGACTCAATTTA
1 AATGGACTCAATTTA
27633816 CCCCTAACTT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (27 bp):
AATGGACTCAATTTATGTCCTAGGCTT
Found at i:27633976 original size:20 final size:19
Alignment explanation
Indices: 27633932--27633976 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
27633922 AGCACATGCA
*
27633932 TTCATAAAATTTTAGAATT
1 TTCATAAAATTTTACAATT
*
27633951 TGTCATCAAATTTTACAACTT
1 T-TCATAAAATTTTACAA-TT
27633972 TTCAT
1 TTCAT
27633977 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 1 0.05
20 18 0.82
21 3 0.14
ACGTcount: A:0.36, C:0.13, G:0.04, T:0.47
Consensus pattern (19 bp):
TTCATAAAATTTTACAATT
Found at i:27642417 original size:28 final size:27
Alignment explanation
Indices: 27642359--27642436 Score: 104
Period size: 28 Copynumber: 2.9 Consensus size: 27
27642349 GTCCTAGCAG
* *
27642359 ACTTA-CTTGTGTTTATTGTTCTCACGG
1 ACTTACCTTGTGTTTATTG-TCCCACGA
*
27642386 ACTTACCTTGTGTTTACTGTCCCAGCGA
1 ACTTACCTTGTGTTTATTGTCCCA-CGA
27642414 ACTTACCTTGTGTTTATTGTCCC
1 ACTTACCTTGTGTTTATTGTCCC
27642437 GATAGGCTTA
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
27 9 0.20
28 36 0.80
ACGTcount: A:0.15, C:0.24, G:0.17, T:0.44
Consensus pattern (27 bp):
ACTTACCTTGTGTTTATTGTCCCACGA
Found at i:27654172 original size:24 final size:24
Alignment explanation
Indices: 27654144--27654191 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
27654134 ACAAGTACCC
*
27654144 TTTTTATCATAAGTAACATTTTTA
1 TTTTTATCATAAGCAACATTTTTA
27654168 TTTTTATCATAAGCAACATTTTTA
1 TTTTTATCATAAGCAACATTTTTA
27654192 CTCGAACATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.33, C:0.10, G:0.04, T:0.52
Consensus pattern (24 bp):
TTTTTATCATAAGCAACATTTTTA
Found at i:27654671 original size:22 final size:22
Alignment explanation
Indices: 27654628--27654681 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
27654618 TACAGGGCTC
* **
27654628 ACACGCCTGTGTGGTCCAAGGG
1 ACACGCCCGTGTGACCCAAGGG
*
27654650 ACACGCCCGTGTGACCCTAGGG
1 ACACGCCCGTGTGACCCAAGGG
*
27654672 -CACACCCGTG
1 ACACGCCCGTG
27654682 CTGCAGGCCG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 9 0.33
22 18 0.67
ACGTcount: A:0.19, C:0.35, G:0.31, T:0.15
Consensus pattern (22 bp):
ACACGCCCGTGTGACCCAAGGG
Found at i:27662519 original size:28 final size:28
Alignment explanation
Indices: 27662487--27662551 Score: 105
Period size: 28 Copynumber: 2.3 Consensus size: 28
27662477 ATTTACTAGA
*
27662487 ATACCCCTATGTATGCAAAATTACCAT-T
1 ATACCCCTATGTATGCAAAATGACC-TCT
27662515 ATACCCCTATGTATGCAAAATGACCTCT
1 ATACCCCTATGTATGCAAAATGACCTCT
27662543 ATACCCCTA
1 ATACCCCTA
27662552 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 1 0.03
28 34 0.97
ACGTcount: A:0.34, C:0.29, G:0.08, T:0.29
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCTCT
Found at i:27662698 original size:27 final size:27
Alignment explanation
Indices: 27662660--27662762 Score: 104
Period size: 27 Copynumber: 3.8 Consensus size: 27
27662650 AAGCGTCCTG
*
27662660 GTGGCTATGCCACAATTATCTGATCTA
1 GTGGCTCTGCCACAATTATCTGATCTA
27662687 GTGGCTCTGCCACATATT-TCTG-TCCTA
1 GTGGCTCTGCCACA-ATTATCTGAT-CTA
* *
27662714 GTGGCTCTGCCACGATTATCTGTATCTG
1 GTGGCTCTGCCACAATTATCTG-ATCTA
** *
27662742 GTAACTCTGTCAC-ATTATCTG
1 GTGGCTCTGCCACAATTATCTG
27662763 TTCTGGTAGC
Statistics
Matches: 65, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
26 4 0.06
27 45 0.69
28 15 0.23
29 1 0.02
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.36
Consensus pattern (27 bp):
GTGGCTCTGCCACAATTATCTGATCTA
Found at i:27662763 original size:27 final size:27
Alignment explanation
Indices: 27662718--27662770 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
27662708 GTCCTAGTGG
27662718 CTCTGCCACGATTATCTGTATCTGGTAA
1 CTCTGCCACGATTATCTGT-TCTGGTAA
*
27662746 CTCTGTCAC-ATTATCTGTTCTGGTA
1 CTCTGCCACGATTATCTGTTCTGGTA
27662771 GCCATGCTGC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 7 0.29
27 9 0.38
28 8 0.33
ACGTcount: A:0.19, C:0.25, G:0.17, T:0.40
Consensus pattern (27 bp):
CTCTGCCACGATTATCTGTTCTGGTAA
Found at i:27662763 original size:54 final size:54
Alignment explanation
Indices: 27662654--27662763 Score: 132
Period size: 54 Copynumber: 2.0 Consensus size: 54
27662644 TGGAGGAAGC
* ** *
27662654 GTCCTGGTGGCTATGCCACAATTATCTGATCTAGTGGCTCTGCCACATATTTCT
1 GTCCTAGTGGCTATGCCACAATTATCTGATCTAGTAACTCTGCCACATATATCT
* * * *
27662708 GTCCTAGTGGCTCTGCCACGATTATCTGTATCTGGTAACTCTGTCACAT-TATCT
1 GTCCTAGTGGCTATGCCACAATTATCTG-ATCTAGTAACTCTGCCACATATATCT
27662762 GT
1 GT
27662764 TCTGGTAGCC
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
54 31 0.66
55 16 0.34
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.36
Consensus pattern (54 bp):
GTCCTAGTGGCTATGCCACAATTATCTGATCTAGTAACTCTGCCACATATATCT
Found at i:27666861 original size:40 final size:40
Alignment explanation
Indices: 27666778--27667036 Score: 312
Period size: 40 Copynumber: 6.5 Consensus size: 40
27666768 ACCCAAGTAT
* * * * *
27666778 CTTCGGGATTTAG-CCGGATATAGCCACTCGCA-CAAGGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATGC
* *
27666816 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATGC
*
27666856 CTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATGC
* * *
27666896 CTTCGGGACTTAG-TCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATGC
* * * *
27666935 CTTCGGGTCTTAGCCCGAATATAG-CAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCATAAATGC
* *
27666975 CTTC-GGATCTTAGTCCGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCACTAGCATAAATGC
27667015 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
27667037 CATTCGAATA
Statistics
Matches: 188, Mismatches: 26, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
38 11 0.06
39 53 0.28
40 120 0.64
41 4 0.02
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATGC
Found at i:27666914 original size:79 final size:77
Alignment explanation
Indices: 27666778--27667036 Score: 306
Period size: 79 Copynumber: 3.3 Consensus size: 77
27666768 ACCCAAGTAT
* * * * * * *
27666778 CTTCGGGATTTAG-CCGGATATAGCCACTCGCACAAGGCCTTCGGGTCTTAGCCCGGATATGGTC
1 CTTCGGGACTTAGCCCGGATATAG-CACTAGCAAAAAGCCTTCGGGACTTAG-TCGGATATAGTC
27666842 ACTAGCATAAATGC
64 ACTAGCATAAATGC
27666856 CTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAAAGCCTTCGGGACTTAGTCGGATATAGTC
1 CTTCGGGACTTAGCCCGGATATAG-CACTAGCA-AAAAGCCTTCGGGACTTAGTCGGATATAGTC
* *
27666921 GCTAGCACAAATGC
64 ACTAGCATAAATGC
* * * *
27666935 CTTCGGGTCTTAGCCCGAATATAGCAACTTGCACAAATGCCTTC-GGATCTTAGTCCGGATATAG
1 CTTCGGGACTTAGCCCGGATATAGC-ACTAGCA-AAAAGCCTTCGGGA-CTTAGT-CGGATATAG
*
27666999 TCACTAGCATAAAAGC
62 TCACTAGCATAAATGC
27667015 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
27667037 CATTCGAATA
Statistics
Matches: 156, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
78 16 0.10
79 82 0.53
80 58 0.37
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.25
Consensus pattern (77 bp):
CTTCGGGACTTAGCCCGGATATAGCACTAGCAAAAAGCCTTCGGGACTTAGTCGGATATAGTCAC
TAGCATAAATGC
Found at i:27666993 original size:119 final size:118
Alignment explanation
Indices: 27666778--27667036 Score: 369
Period size: 119 Copynumber: 2.2 Consensus size: 118
27666768 ACCCAAGTAT
* * * *
27666778 CTTCGGGATTTAGCCGGATATAGCCACTCGCACAAGGCCTTCGGGTCTTAGCCCGGATATGGTCA
1 CTTCGGGACTTAGCCGGATATAGCCACTAGCACAAGGCCTTCGGGTCTTAGCCCGAATATAGTCA
*
27666843 CTAGCATAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAAAGC
66 CTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAAAGC
* * * *
27666896 CTTCGGGACTTAGTCGGATATAGTCGCTAGCACAAATGCCTTCGGGTCTTAGCCCGAATATAG-C
1 CTTCGGGACTTAGCCGGATATAGCCACTAGCAC-AAGGCCTTCGGGTCTTAGCCCGAATATAGTC
* *
27666960 AACTTGCACAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTAGCATAAAAGC
65 -ACTAGCACAAATGCCTTCGGGA-CTTAGCCCGGATATAGTCACTAGCATAAAAGC
27667015 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAG-CCGGATAT
27667037 CATTCGAATA
Statistics
Matches: 125, Mismatches: 12, Indels: 6
0.87 0.08 0.04
Matches are distributed among these distances:
118 32 0.26
119 86 0.69
120 7 0.06
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.25
Consensus pattern (118 bp):
CTTCGGGACTTAGCCGGATATAGCCACTAGCACAAGGCCTTCGGGTCTTAGCCCGAATATAGTCA
CTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAAAGC
Found at i:27675063 original size:40 final size:40
Alignment explanation
Indices: 27674989--27675199 Score: 266
Period size: 40 Copynumber: 5.3 Consensus size: 40
27674979 TCTTCGAGAT
* * *
27674989 TTAG-CCGGATATAGCCACTCGCAC-AAGGCCTTCGGGTC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
* * *
27675027 TTAGCCCGGATATGGTCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
*
27675067 TTAGCCCGGATATAGTCGCTAGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
* *
27675107 TTAGCCCGGATATAG-CAACTCGCACAAATGCCTTCGGATC
1 TTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGTC
* * * * *
27675147 TTAGTCCGGATATAGTCACTAGCATAAAAGCCTTAGGGAC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
27675187 TTAGCCCGGATAT
1 TTAGCCCGGATAT
27675200 CATTCGAATA
Statistics
Matches: 148, Mismatches: 21, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
38 4 0.03
39 17 0.11
40 126 0.85
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
Found at i:27681677 original size:8 final size:8
Alignment explanation
Indices: 27681664--27681694 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
27681654 CTAGATCGGC
27681664 AAAAGCCG
1 AAAAGCCG
27681672 AAAAGCCG
1 AAAAGCCG
*
27681680 AAATGCCG
1 AAAAGCCG
27681688 AAAAGCC
1 AAAAGCC
27681695 AGTATTTTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.48, C:0.26, G:0.23, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Done.