Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 108 of 259
Found at i:34947516 original size:21 final size:21
Alignment explanation
Indices: 34947492--34947533 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
34947482 TCATCAGATC
*
34947492 TACACCTTGAGGCATCGGGGG
1 TACACCTTGAGGAATCGGGGG
**
34947513 TACAGGTTGAGGAATCGGGGG
1 TACACCTTGAGGAATCGGGGG
34947534 AGGTGGGGGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.21, C:0.17, G:0.43, T:0.19
Consensus pattern (21 bp):
TACACCTTGAGGAATCGGGGG
Found at i:34951707 original size:37 final size:37
Alignment explanation
Indices: 34951648--34951793 Score: 229
Period size: 37 Copynumber: 3.9 Consensus size: 37
34951638 AGCTCAGACG
* *
34951648 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
34951685 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* * *
34951722 TACTCTCCACACATAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
34951759 TAATCTCCACACGTAGTCATCGGGTCTCACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
34951794 ATATATTTCC
Statistics
Matches: 101, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 101 1.00
ACGTcount: A:0.26, C:0.33, G:0.18, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:34952008 original size:47 final size:47
Alignment explanation
Indices: 34951956--34952141 Score: 273
Period size: 47 Copynumber: 4.0 Consensus size: 47
34951946 TTTCACACTA
* * * * * *
34951956 GCCATTCGGCTTTACCGCATATATGTATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* * *
34952003 GCCATTCGGCCTTATCACACATATGCATGCTCACGTTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
*
34952050 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATAG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
*
34952097 GCCATTCGGCCTTATCACATATGTGCATGTTCACATTCATCACAT
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACAT
34952142 AAAATCCTAA
Statistics
Matches: 125, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 125 1.00
ACGTcount: A:0.25, C:0.28, G:0.14, T:0.33
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
Found at i:34957024 original size:27 final size:27
Alignment explanation
Indices: 34956987--34957160 Score: 213
Period size: 27 Copynumber: 6.4 Consensus size: 27
34956977 ACTGTAGTTC
* *
34956987 ACCAAATTACCGTTGGTTTGTAAAATT
1 ACCAAAATACCCTTGGTTTGTAAAATT
* *
34957014 ACTAAAATACCCTTGGTTTATAAAATT
1 ACCAAAATACCCTTGGTTTGTAAAATT
*
34957041 ACCAAAATACCATTGGTTTGTAAAATT
1 ACCAAAATACCCTTGGTTTGTAAAATT
* * *
34957068 ACAAAAATACCCCTAGTTTGTAAAATT
1 ACCAAAATACCCTTGGTTTGTAAAATT
* *
34957095 ACCAAAATACCCCTGATTTGTAAAATT
1 ACCAAAATACCCTTGGTTTGTAAAATT
* * **
34957122 ACTAAAATACCCTCGACTTGTAAAATT
1 ACCAAAATACCCTTGGTTTGTAAAATT
*
34957149 ACCAAAGTACCC
1 ACCAAAATACCC
34957161 CCGATTTACA
Statistics
Matches: 127, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 127 1.00
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
ACCAAAATACCCTTGGTTTGTAAAATT
Found at i:34957175 original size:27 final size:27
Alignment explanation
Indices: 34957008--34957215 Score: 112
Period size: 27 Copynumber: 7.7 Consensus size: 27
34956998 GTTGGTTTGT
* ** * *
34957008 AAAATTACTAAAATACCCTTGGTTTAT
1 AAAATTACCAAAATACCCCCGATTTAC
*** * **
34957035 AAAATTACCAAAATACCATTGGTTTGT
1 AAAATTACCAAAATACCCCCGATTTAC
* * **
34957062 AAAATTACAAAAATA-CCCCTAGTTTGT
1 AAAATTACCAAAATACCCCCGA-TTTAC
* **
34957089 AAAATTACCAAAATACCCCTGATTTGT
1 AAAATTACCAAAATACCCCCGATTTAC
* * * **
34957116 AAAATTACTAAAATACCCTCGACTTGT
1 AAAATTACCAAAATACCCCCGATTTAC
*
34957143 AAAATTACCAAAGTACCCCCGATTTAC
1 AAAATTACCAAAATACCCCCGATTTAC
* * *** *
34957170 AGAATTATCATTTTACCCTCGATTTAC
1 AAAATTACCAAAATACCCCCGATTTAC
**
34957197 AAAATTACTGAAATACCCC
1 AAAATTACCAAAATACCCC
34957216 TGTAGGGTAG
Statistics
Matches: 143, Mismatches: 36, Indels: 4
0.78 0.20 0.02
Matches are distributed among these distances:
26 1 0.01
27 138 0.97
28 4 0.03
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCCGATTTAC
Found at i:34957229 original size:27 final size:27
Alignment explanation
Indices: 34957197--34957259 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
34957187 CTCGATTTAC
*
34957197 AAAATTACTGAAATACCC-CTGTAGGGT
1 AAAATTACCGAAATACCCTC-GTAGGGT
* * *
34957224 AGAATTACCGAGATACCCTCGTGGGGT
1 AAAATTACCGAAATACCCTCGTAGGGT
34957251 AAAATTACC
1 AAAATTACC
34957260 ATTTTGCCCC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 29 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.24
Consensus pattern (27 bp):
AAAATTACCGAAATACCCTCGTAGGGT
Found at i:34965711 original size:33 final size:34
Alignment explanation
Indices: 34965669--34965755 Score: 149
Period size: 36 Copynumber: 2.5 Consensus size: 34
34965659 AGTAGGCAAC
34965669 AACAAGCTATTGCCCATGTTGTTC-AAAAAAAAA
1 AACAAGCTATTGCCCATGTTGTTCAAAAAAAAAA
34965702 AACAAGCTATTGCCCATGTTGTTCAAAAAAAAAAAA
1 AACAAGCTATTGCCCATGTTGTTC--AAAAAAAAAA
34965738 AACAAGCTATTGCCCATG
1 AACAAGCTATTGCCCATG
34965756 AAGCTGGATA
Statistics
Matches: 51, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
33 24 0.47
36 27 0.53
ACGTcount: A:0.45, C:0.20, G:0.13, T:0.23
Consensus pattern (34 bp):
AACAAGCTATTGCCCATGTTGTTCAAAAAAAAAA
Found at i:34971344 original size:43 final size:43
Alignment explanation
Indices: 34971262--34971409 Score: 149
Period size: 43 Copynumber: 3.5 Consensus size: 43
34971252 TGAGACATTG
* * *
34971262 TGTAAGACCGTGTCTGGGACATAGGCCTCGAT-TGAGATTTACA
1 TGTAAGACCATGTCTGGGACATAGGCATCGATAT-TGATTTACA
* * *
34971305 TATAAGACCATGTCTGGGACATCGGCATC-ATATCTGATTT-CG
1 TGTAAGACCATGTCTGGGACATAGGCATCGATAT-TGATTTACA
* * * *
34971347 TGTAAGACCCTATCTGGGACAAAGGCATCGATATTGAATTACA
1 TGTAAGACCATGTCTGGGACATAGGCATCGATATTGATTTACA
* *
34971390 TGTAAGACCACGTCCGGGAC
1 TGTAAGACCATGTCTGGGAC
34971410 GTCGGCATTG
Statistics
Matches: 84, Mismatches: 18, Indels: 6
0.78 0.17 0.06
Matches are distributed among these distances:
42 32 0.38
43 52 0.62
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.26
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATAGGCATCGATATTGATTTACA
Found at i:34971396 original size:85 final size:85
Alignment explanation
Indices: 34971261--34971417 Score: 210
Period size: 85 Copynumber: 1.8 Consensus size: 85
34971251 CTGAGACATT
* * * * * *
34971261 GTGTAAGACCGTGTCTGGGACATAGGCCTCGATTGAGATTTACATATAAGACCATGTCTGGGACA
1 GTGTAAGACCCTATCTGGGACAAAGGCATCGATTGAGATTTACATATAAGACCACGTCCGGGACA
34971326 TCGGCATCATATCTGATTTC
66 TCGGCATCATATCTGATTTC
*
34971346 GTGTAAGACCCTATCTGGGACAAAGGCATCGATATTGA-A-TTACATGTAAGACCACGTCCGGGA
1 GTGTAAGACCCTATCTGGGACAAAGGCATCG--ATTGAGATTTACATATAAGACCACGTCCGGGA
*
34971409 CGTCGGCAT
64 CATCGGCAT
34971418 TGTACTTGGT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
85 56 0.90
86 1 0.02
87 5 0.08
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.26
Consensus pattern (85 bp):
GTGTAAGACCCTATCTGGGACAAAGGCATCGATTGAGATTTACATATAAGACCACGTCCGGGACA
TCGGCATCATATCTGATTTC
Found at i:34976098 original size:22 final size:22
Alignment explanation
Indices: 34976073--34976114 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
34976063 TGCAAAGTTG
34976073 ATAAT-AAT-TAA-TATATATT
1 ATAATAAATATAATTATATATT
34976092 ATAATAAATATAATTATATATT
1 ATAATAAATATAATTATATATT
34976114 A
1 A
34976115 GTTATTATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 5 0.25
20 3 0.15
21 3 0.15
22 9 0.45
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
ATAATAAATATAATTATATATT
Found at i:34976101 original size:16 final size:15
Alignment explanation
Indices: 34976076--34976109 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
34976066 AAAGTTGATA
*
34976076 ATAATTAATATATATT
1 ATAATAAATATA-ATT
34976092 ATAATAAATATAATT
1 ATAATAAATATAATT
34976107 ATA
1 ATA
34976110 TATTAGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:34978090 original size:21 final size:23
Alignment explanation
Indices: 34978046--34978090 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
34978036 TTTTGTGCAC
* *
34978046 GTTGGTAAGTTGGGCCTCAGTGG
1 GTTGGTAAATTGGGCCTCAATGG
34978069 GTTGG-AAATTGGG-CTCAATGG
1 GTTGGTAAATTGGGCCTCAATGG
34978090 G
1 G
34978091 CTTTCGGGCC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 8 0.40
22 7 0.35
23 5 0.25
ACGTcount: A:0.18, C:0.11, G:0.42, T:0.29
Consensus pattern (23 bp):
GTTGGTAAATTGGGCCTCAATGG
Found at i:34978463 original size:10 final size:10
Alignment explanation
Indices: 34978442--34978508 Score: 82
Period size: 10 Copynumber: 6.6 Consensus size: 10
34978432 CATGAGATTT
34978442 TGATAT-ACA
1 TGATATGACA
34978451 TGATATGACA
1 TGATATGACA
34978461 TGATATGACA
1 TGATATGACA
34978471 TGATATGCACA
1 TGATATG-ACA
**
34978482 TGATATGTTA
1 TGATATGACA
*
34978492 TGAGATGCACA
1 TGATATG-ACA
34978503 TGATAT
1 TGATAT
34978509 ACTCATTATA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
9 6 0.12
10 27 0.55
11 16 0.33
ACGTcount: A:0.37, C:0.10, G:0.19, T:0.33
Consensus pattern (10 bp):
TGATATGACA
Found at i:34978484 original size:21 final size:21
Alignment explanation
Indices: 34978442--34978508 Score: 93
Period size: 21 Copynumber: 3.3 Consensus size: 21
34978432 CATGAGATTT
34978442 TGATAT-ACATGATATG-ACA
1 TGATATGACATGATATGCACA
34978461 TGATATGACATGATATGCACA
1 TGATATGACATGATATGCACA
** *
34978482 TGATATGTTATGAGATGCACA
1 TGATATGACATGATATGCACA
34978503 TGATAT
1 TGATAT
34978509 ACTCATTATA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
19 6 0.14
20 10 0.23
21 27 0.63
ACGTcount: A:0.37, C:0.10, G:0.19, T:0.33
Consensus pattern (21 bp):
TGATATGACATGATATGCACA
Found at i:34978520 original size:32 final size:31
Alignment explanation
Indices: 34978448--34978520 Score: 83
Period size: 32 Copynumber: 2.3 Consensus size: 31
34978438 ATTTTGATAT
** * *
34978448 ACATGATATGACATGATATGACATGATATGC
1 ACATGATATGTTATGAGATGACATGATATAC
34978479 ACATGATATGTTATGAGATGCACATGATATAC
1 ACATGATATGTTATGAGATG-ACATGATATAC
* *
34978511 TCATTATATG
1 ACATGATATG
34978521 CATGGGTTGG
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
31 17 0.49
32 18 0.51
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (31 bp):
ACATGATATGTTATGAGATGACATGATATAC
Found at i:34978592 original size:25 final size:25
Alignment explanation
Indices: 34978554--34978607 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
34978544 GAGGAAGTGC
34978554 AAAAAAGGGCTTTGCCCCAGTTAAT
1 AAAAAAGGGCTTTGCCCCAGTTAAT
* * *
34978579 AAAAAAGGGTTTTGCGCCAGTTATT
1 AAAAAAGGGCTTTGCCCCAGTTAAT
34978604 AAAA
1 AAAA
34978608 GAGGATAGGC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.26
Consensus pattern (25 bp):
AAAAAAGGGCTTTGCCCCAGTTAAT
Found at i:34983805 original size:26 final size:27
Alignment explanation
Indices: 34983771--34983827 Score: 107
Period size: 26 Copynumber: 2.1 Consensus size: 27
34983761 AAAGTATAAT
34983771 TTTTTTCCATGGATGAATATG-TAAAA
1 TTTTTTCCATGGATGAATATGCTAAAA
34983797 TTTTTTCCATGGATGAATATGCTAAAA
1 TTTTTTCCATGGATGAATATGCTAAAA
34983824 TTTT
1 TTTT
34983828 GAAATTTATG
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 21 0.70
27 9 0.30
ACGTcount: A:0.32, C:0.09, G:0.14, T:0.46
Consensus pattern (27 bp):
TTTTTTCCATGGATGAATATGCTAAAA
Found at i:34988875 original size:47 final size:47
Alignment explanation
Indices: 34988796--34989073 Score: 342
Period size: 47 Copynumber: 5.6 Consensus size: 47
34988786 TATTTGAATA
34988796 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
34988845 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
34988892 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATG-----T----GA--T---G
34988953 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * *
34989000 AATGTGAAAGTGTATATATGTGACAGGGCC-AAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAA-TGGCCGATGTGATG
* *
34989047 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
34989074 TCCCGAAGGG
Statistics
Matches: 206, Mismatches: 8, Indels: 32
0.84 0.03 0.13
Matches are distributed among these distances:
46 2 0.01
47 141 0.68
49 12 0.06
50 1 0.00
52 3 0.01
56 3 0.01
58 1 0.00
61 43 0.21
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:34988938 original size:14 final size:14
Alignment explanation
Indices: 34988919--34988947 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
34988909 ATGTGATAAG
34988919 GCCTAATGGCCGAT
1 GCCTAATGGCCGAT
34988933 GCCTAATGGCCGAT
1 GCCTAATGGCCGAT
34988947 G
1 G
34988948 TGATGAATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.28, G:0.31, T:0.21
Consensus pattern (14 bp):
GCCTAATGGCCGAT
Found at i:34988946 original size:61 final size:61
Alignment explanation
Indices: 34988872--34988994 Score: 246
Period size: 61 Copynumber: 2.0 Consensus size: 61
34988862 ATGTGATAAG
34988872 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
34988933 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
34988994 G
1 G
34988995 TGATGAATGT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.29, C:0.13, G:0.30, T:0.28
Consensus pattern (61 bp):
GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
Found at i:34988965 original size:108 final size:108
Alignment explanation
Indices: 34988825--34989022 Score: 396
Period size: 108 Copynumber: 1.8 Consensus size: 108
34988815 ATGTGATAAG
34988825 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGA
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGA
34988890 TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
66 TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
34988933 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGA
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGA
34988998 TGAATGTGAAAGTGTATATATGTGA
66 TGAATGTGAAAGTGTATATATGTGA
34989023 CAGGGCCAAG
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
108 90 1.00
ACGTcount: A:0.31, C:0.10, G:0.30, T:0.29
Consensus pattern (108 bp):
GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGA
TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
Found at i:34996883 original size:40 final size:40
Alignment explanation
Indices: 34996839--34996946 Score: 137
Period size: 41 Copynumber: 2.7 Consensus size: 40
34996829 TGAAAAATTA
* * *
34996839 GCTATATGTGGCACTTAGTGTGCGATTCGACTTAGCTT-TG
1 GCTATATATGGCACTTAGTGTGCGATTCAACATAG-TTGTG
* * *
34996879 GCTATATATGGCACTTAGTGTACGAGATCAAGATAGTTGTG
1 GCTATATATGGCACTTAGTGTGCGA-TTCAACATAGTTGTG
34996920 GCTATATATGGCACTTAGTGTGCGATT
1 GCTATATATGGCACTTAGTGTGCGATT
34996947 TGAGATAGCT
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
40 26 0.45
41 32 0.55
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.35
Consensus pattern (40 bp):
GCTATATATGGCACTTAGTGTGCGATTCAACATAGTTGTG
Found at i:34996937 original size:81 final size:81
Alignment explanation
Indices: 34996839--34996987 Score: 208
Period size: 81 Copynumber: 1.8 Consensus size: 81
34996829 TGAAAAATTA
* * *** *
34996839 GCTATATGTGGCACTTAGTGTGCGATTCGACTTAGCTTTGGCTATATATGGCACTTAGTGTACGA
1 GCTATATATGGCACTTAGTGTGCGATTCGACATAGCTTCAACTATATACGGCACTTAGTGTACGA
34996904 GATCAAGATAGTTGTG
66 GATCAAGATAGTTGTG
* * * *
34996920 GCTATATATGGCACTTAGTGTGCGATTTGAGATAGCTTCAACTATGTACGGCACTTAGTGTGCGA
1 GCTATATATGGCACTTAGTGTGCGATTCGACATAGCTTCAACTATATACGGCACTTAGTGTACGA
34996985 GAT
66 GAT
34996988 ATCAAGTAAT
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 58 1.00
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.34
Consensus pattern (81 bp):
GCTATATATGGCACTTAGTGTGCGATTCGACATAGCTTCAACTATATACGGCACTTAGTGTACGA
GATCAAGATAGTTGTG
Found at i:35001865 original size:15 final size:15
Alignment explanation
Indices: 35001847--35001900 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
35001837 CTTCCTAATC
35001847 TTCTTTTTTTTCTCT
1 TTCTTTTTTTTCTCT
* **
35001862 TTCTTTTTCCTAATC-
1 TTCTTTTT-TTTCTCT
35001877 TTCTTTTTTTTTCTCT
1 TTC-TTTTTTTTCTCT
35001893 TTCTTTTT
1 TTCTTTTT
35001901 CCTGGTCGCT
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
15 19 0.63
16 11 0.37
ACGTcount: A:0.04, C:0.20, G:0.00, T:0.76
Consensus pattern (15 bp):
TTCTTTTTTTTCTCT
Found at i:35001872 original size:30 final size:31
Alignment explanation
Indices: 35001831--35001903 Score: 130
Period size: 31 Copynumber: 2.4 Consensus size: 31
35001821 TTTAATGGCG
*
35001831 TTTCTTCTTCCTAATCTTC-TTTTTTTTCTC
1 TTTCTTTTTCCTAATCTTCTTTTTTTTTCTC
35001861 TTTCTTTTTCCTAATCTTCTTTTTTTTTCTC
1 TTTCTTTTTCCTAATCTTCTTTTTTTTTCTC
35001892 TTTCTTTTTCCT
1 TTTCTTTTTCCT
35001904 GGTCGCTTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
30 18 0.44
31 23 0.56
ACGTcount: A:0.05, C:0.25, G:0.00, T:0.70
Consensus pattern (31 bp):
TTTCTTTTTCCTAATCTTCTTTTTTTTTCTC
Found at i:35003829 original size:25 final size:24
Alignment explanation
Indices: 35003795--35003842 Score: 87
Period size: 25 Copynumber: 2.0 Consensus size: 24
35003785 TTCAAATCAC
35003795 GTATAATCAACCCAATATTTTCAAA
1 GTATAATCAACCCAAT-TTTTCAAA
35003820 GTATAATCAACCCAATTTTTCAA
1 GTATAATCAACCCAATTTTTCAA
35003843 TTACGTATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 7 0.30
25 16 0.70
ACGTcount: A:0.42, C:0.21, G:0.04, T:0.33
Consensus pattern (24 bp):
GTATAATCAACCCAATTTTTCAAA
Found at i:35004795 original size:28 final size:28
Alignment explanation
Indices: 35004746--35004822 Score: 68
Period size: 28 Copynumber: 2.7 Consensus size: 28
35004736 AAAAAAATTC
* *
35004746 AAATATTAAAAATT-TATTAAAAATTAAGAA
1 AAATA-TAAAAATTGTA-AAAAAAATAA-AA
35004776 AAATAT-AAAATTGTAAAAAAAATAAAA
1 AAATATAAAAATTGTAAAAAAAATAAAA
***
35004803 TTTTATAAAAATTGTAAAAA
1 AAATATAAAAATTGTAAAAA
35004823 TTATAAAATA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
27 5 0.12
28 27 0.68
29 3 0.08
30 5 0.12
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (28 bp):
AAATATAAAAATTGTAAAAAAAATAAAA
Found at i:35004810 original size:10 final size:10
Alignment explanation
Indices: 35004797--35004869 Score: 50
Period size: 10 Copynumber: 7.7 Consensus size: 10
35004787 TGTAAAAAAA
35004797 ATAAAATTTT
1 ATAAAATTTT
*
35004807 ATAAAAATTGT
1 AT-AAAATTTT
35004818 A-AAAA--TT
1 ATAAAATTTT
*
35004825 ATAAAA-TAT
1 ATAAAATTTT
*
35004834 ATAGAAA-TAT
1 ATA-AAATTTT
*
35004844 A-AAAAATTT
1 ATAAAATTTT
35004853 ATAAAATTTT
1 ATAAAATTTT
35004863 ATAAAAT
1 ATAAAAT
35004870 GTAAAGAAAT
Statistics
Matches: 52, Mismatches: 5, Indels: 12
0.75 0.07 0.17
Matches are distributed among these distances:
7 2 0.04
8 7 0.13
9 12 0.23
10 23 0.44
11 8 0.15
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (10 bp):
ATAAAATTTT
Found at i:35004820 original size:19 final size:18
Alignment explanation
Indices: 35004761--35004868 Score: 66
Period size: 17 Copynumber: 6.0 Consensus size: 18
35004751 TTAAAAATTT
* *
35004761 ATTA-AAAATTAAGAAAA
1 ATTATAAAATTTATAAAA
35004778 A-TATAAAATTGTA-AAAA
1 ATTATAAAATT-TATAAAA
*
35004795 A-AATAAAATTTTATAAAA
1 ATTATAAAA-TTTATAAAA
* *
35004813 ATTGTAAAAATTAT-AAA
1 ATTATAAAATTTATAAAA
*
35004830 ATATATAGAAATATA-AAAA
1 AT-TATA-AAATTTATAAAA
35004849 ATTTATAAAATTTTATAAAA
1 A-TTATAAAA-TTTATAAAA
35004869 TGTAAAGAAA
Statistics
Matches: 71, Mismatches: 9, Indels: 19
0.72 0.09 0.19
Matches are distributed among these distances:
16 2 0.03
17 25 0.35
18 18 0.25
19 21 0.30
20 5 0.07
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (18 bp):
ATTATAAAATTTATAAAA
Found at i:35004821 original size:8 final size:9
Alignment explanation
Indices: 35004752--35004868 Score: 62
Period size: 9 Copynumber: 12.6 Consensus size: 9
35004742 ATTCAAATAT
35004752 TAAAAATTTA
1 TAAAAA-TTA
35004762 TTAAAAATTA
1 -TAAAAATTA
*
35004772 -AGAAAAATA
1 TA-AAAATTA
*
35004781 T-AAAATTG
1 TAAAAATTA
**
35004789 TAAAAAAAA
1 TAAAAATTA
*
35004798 TAAAATTTTA
1 TAAAA-ATTA
*
35004808 TAAAAATTG
1 TAAAAATTA
35004817 TAAAAATTA
1 TAAAAATTA
35004826 T-AAAATATA
1 TAAAAAT-TA
*
35004835 TAGAAA-TA
1 TAAAAATTA
35004843 TAAAAAATTTA
1 T-AAAAA-TTA
*
35004854 TAAAATTTTA
1 TAAAA-ATTA
35004864 TAAAA
1 TAAAA
35004869 TGTAAAGAAA
Statistics
Matches: 81, Mismatches: 15, Indels: 21
0.69 0.13 0.18
Matches are distributed among these distances:
8 15 0.19
9 33 0.41
10 24 0.30
11 9 0.11
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (9 bp):
TAAAAATTA
Found at i:35004828 original size:28 final size:28
Alignment explanation
Indices: 35004782--35004911 Score: 97
Period size: 28 Copynumber: 4.6 Consensus size: 28
35004772 AGAAAAATAT
**
35004782 AAAATTGTAAAAAAAATAAAATTTTATA
1 AAAATTGTAAAAATTATAAAATTTTATA
*
35004810 AAAATTGTAAAAATTATAAAA-TATATA
1 AAAATTGTAAAAATTATAAAATTTTATA
* *
35004837 GAAATAT-AAAAAATTTATAAAATTTTAT-
1 AAAAT-TGTAAAAA-TTATAAAATTTTATA
* ** *
35004865 AAAA-TGTAAAGAAATATAACTTTTCTAAAA
1 AAAATTGTAAA-AATTATAAAATTT-T-ATA
*
35004895 AAAATTATAAAAATTAT
1 AAAATTGTAAAAATTAT
35004912 CGTACCAAAA
Statistics
Matches: 79, Mismatches: 14, Indels: 16
0.72 0.13 0.15
Matches are distributed among these distances:
26 1 0.01
27 25 0.32
28 34 0.43
29 5 0.06
30 9 0.11
31 5 0.06
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.34
Consensus pattern (28 bp):
AAAATTGTAAAAATTATAAAATTTTATA
Found at i:35004846 original size:45 final size:44
Alignment explanation
Indices: 35004746--35004858 Score: 113
Period size: 46 Copynumber: 2.5 Consensus size: 44
35004736 AAAAAAATTC
*
35004746 AAATATTAAAAATTTATTAAAAATTAAGAAAAATATAAAATTGTAAA
1 AAATA-TAAAAATTTA-TAAAAATT-AGAAAAATATAAAATTATAAA
* * *
35004793 AAAAATAAAATTTTATAAAAATT-GTAAAAATTATAAAA-TATATAG
1 AAATATAAAAATTTATAAAAATTAG-AAAAA-TATAAAATTATA-AA
35004838 AAATATAAAAAATTTATAAAA
1 AAATAT-AAAAATTTATAAAA
35004859 TTTTATAAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 9
0.79 0.08 0.13
Matches are distributed among these distances:
43 1 0.02
44 8 0.14
45 21 0.38
46 22 0.39
47 4 0.07
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.32
Consensus pattern (44 bp):
AAATATAAAAATTTATAAAAATTAGAAAAATATAAAATTATAAA
Found at i:35008294 original size:13 final size:13
Alignment explanation
Indices: 35008276--35008300 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35008266 ATTCTGTAAC
35008276 TCTGTATCTATTA
1 TCTGTATCTATTA
35008289 TCTGTATCTATT
1 TCTGTATCTATT
35008301 TTGGGGTGGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.16, G:0.08, T:0.56
Consensus pattern (13 bp):
TCTGTATCTATTA
Found at i:35008612 original size:27 final size:27
Alignment explanation
Indices: 35008572--35008639 Score: 100
Period size: 27 Copynumber: 2.5 Consensus size: 27
35008562 GCGTATATGA
* *
35008572 TTCTGTTTACGTAAACTCACAGTCTAT
1 TTCTGTTCAGGTAAACTCACAGTCTAT
* *
35008599 TTCTGTTCAGGTAAACTCACTGTCTGT
1 TTCTGTTCAGGTAAACTCACAGTCTAT
35008626 TTCTGTTCAGGTAA
1 TTCTGTTCAGGTAA
35008640 TCCACAGACT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.22, C:0.21, G:0.16, T:0.41
Consensus pattern (27 bp):
TTCTGTTCAGGTAAACTCACAGTCTAT
Found at i:35022013 original size:43 final size:43
Alignment explanation
Indices: 35021946--35022064 Score: 134
Period size: 43 Copynumber: 2.8 Consensus size: 43
35021936 AAGCTCGTAC
* *
35021946 AATGCCAATGTCCCAGAC-GAGGTCTTATATGTAATCAAATATT
1 AATGCCAATGTCCCAGACAG-GGTCTTACATGTAATCAAATACT
* * * * *
35021989 AATGCCACTATCCCAGACAGGGTCTTACAGGAAATCATATACT
1 AATGCCAATGTCCCAGACAGGGTCTTACATGTAATCAAATACT
* *
35022032 -ATGCCAATGTCCTAGACATGGTCTTACATGTAA
1 AATGCCAATGTCCCAGACAGGGTCTTACATGTAA
35022065 ATTTGAAATC
Statistics
Matches: 62, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
42 27 0.44
43 34 0.55
44 1 0.02
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.28
Consensus pattern (43 bp):
AATGCCAATGTCCCAGACAGGGTCTTACATGTAATCAAATACT
Found at i:35022414 original size:19 final size:19
Alignment explanation
Indices: 35022392--35022430 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
35022382 AATTAATATA
35022392 AATTAACTTATTTAATCAC
1 AATTAACTTATTTAATCAC
35022411 AATTAACTTATTTAATCAC
1 AATTAACTTATTTAATCAC
35022430 A
1 A
35022431 TATGTACTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (19 bp):
AATTAACTTATTTAATCAC
Found at i:35039319 original size:22 final size:23
Alignment explanation
Indices: 35039269--35039342 Score: 107
Period size: 23 Copynumber: 3.3 Consensus size: 23
35039259 ATCAACTCAT
35039269 TAGAGCTTACCGTTTCAGCTCG-
1 TAGAGCTTACCGTTTCAGCTCGA
*
35039291 TATGAGCTTACTGTTT-AGCTCGA
1 TA-GAGCTTACCGTTTCAGCTCGA
*
35039314 TAGAGCTTACCGTTTCAGCTCAA
1 TAGAGCTTACCGTTTCAGCTCGA
35039337 TAGAGC
1 TAGAGC
35039343 ATACTGTTCA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
22 20 0.43
23 26 0.57
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.32
Consensus pattern (23 bp):
TAGAGCTTACCGTTTCAGCTCGA
Found at i:35039331 original size:45 final size:47
Alignment explanation
Indices: 35039237--35039335 Score: 141
Period size: 45 Copynumber: 2.1 Consensus size: 47
35039227 GGACTCACCA
35039237 CAGCTCATATGAGCTTACTATTATCAACTCATTAGAGCTTACCGTTT
1 CAGCTCATATGAGCTTACTATTATCAACTCATTAGAGCTTACCGTTT
* * *
35039284 CAGCTCGTATGAGCTTACTGTT-T-AGCTCGA-TAGAGCTTACCGTTT
1 CAGCTCATATGAGCTTACTATTATCAACTC-ATTAGAGCTTACCGTTT
35039329 CAGCTCA
1 CAGCTCA
35039336 ATAGAGCATA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
45 25 0.53
46 2 0.04
47 20 0.43
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.34
Consensus pattern (47 bp):
CAGCTCATATGAGCTTACTATTATCAACTCATTAGAGCTTACCGTTT
Found at i:35039359 original size:25 final size:23
Alignment explanation
Indices: 35039264--35039360 Score: 81
Period size: 23 Copynumber: 4.2 Consensus size: 23
35039254 CTATTATCAA
* *
35039264 CTCATTAGAGCTTACCGTTTCAG
1 CTCAATAGAGCATACCGTTTCAG
* * *
35039287 CTC-GTATGAGCTTACTGTTT-AG
1 CTCAATA-GAGCATACCGTTTCAG
* *
35039309 CTCGATAGAGCTTACCGTTTCAG
1 CTCAATAGAGCATACCGTTTCAG
*
35039332 CTCAATAGAGCATACTGTTCATCAG
1 CTCAATAGAGCATACCGTT--TCAG
35039357 CTCA
1 CTCA
35039361 GGAGGAGCTT
Statistics
Matches: 62, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
22 19 0.31
23 35 0.56
25 8 0.13
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.33
Consensus pattern (23 bp):
CTCAATAGAGCATACCGTTTCAG
Found at i:35041904 original size:24 final size:23
Alignment explanation
Indices: 35041858--35041904 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
35041848 TTAACCCCAC
* **
35041858 ATGGTGTGTTGGGATGGTTGTAG
1 ATGGTGTGTAGGGATGGGGGTAG
35041881 ATGGTGTGTAGAGGATGGGGGTAG
1 ATGGTGTGTAG-GGATGGGGGTAG
35041905 GATTCTGATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.17, C:0.00, G:0.51, T:0.32
Consensus pattern (23 bp):
ATGGTGTGTAGGGATGGGGGTAG
Found at i:35049266 original size:17 final size:17
Alignment explanation
Indices: 35049244--35049277 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
35049234 GATATGATAC
35049244 TAAAAT-TATTAAAAAAT
1 TAAAATATA-TAAAAAAT
35049261 TAAAATATATAAAAAAT
1 TAAAATATATAAAAAAT
35049278 CTGAGAAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 14 0.88
18 2 0.12
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
TAAAATATATAAAAAAT
Found at i:35049566 original size:22 final size:21
Alignment explanation
Indices: 35049531--35049606 Score: 59
Period size: 22 Copynumber: 3.7 Consensus size: 21
35049521 AAAAGGTATC
* * *
35049531 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCAAAGAT
35049552 TACAAAATCATATCTTCAAAGAT
1 TAC-AAATCATATC-TCAAAGAT
* *
35049575 TGCATATCATATCT--AAGAT
1 TACAAATCATATCTCAAAGAT
*
35049594 TGC-AATCATATCT
1 TACAAATCATATCT
35049607 AAGATTGTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
18 9 0.19
19 8 0.17
21 4 0.09
22 17 0.36
23 9 0.19
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.34
Consensus pattern (21 bp):
TACAAATCATATCTCAAAGAT
Found at i:35049603 original size:18 final size:18
Alignment explanation
Indices: 35049570--35049630 Score: 97
Period size: 17 Copynumber: 3.4 Consensus size: 18
35049560 CATATCTTCA
35049570 AAGATTGCATATCATATCT
1 AAGATTGCA-ATCATATCT
35049589 AAGATTGCAATCATATCT
1 AAGATTGCAATCATATCT
*
35049607 AAGATTG-TATCATATCT
1 AAGATTGCAATCATATCT
35049624 AAGATTG
1 AAGATTG
35049631 TATATCATTG
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
17 16 0.39
18 16 0.39
19 9 0.22
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (18 bp):
AAGATTGCAATCATATCT
Found at i:35050050 original size:45 final size:45
Alignment explanation
Indices: 35049986--35050259 Score: 268
Period size: 45 Copynumber: 6.1 Consensus size: 45
35049976 GGAAGGCGAT
* * * *
35049986 ATCTGCTATCTTTGATCTGCTCCCTGTCTAATACAGAGAGGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
*
35050031 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * *
35050076 ATCTGCT-TCTTCAATCTGATCCCCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * * *
35050120 ATCTATTATCTCCGATTTGCTACCCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * * * * * * *
35050165 ATCTGTCATCTTGGATCTGCT--TCGATGTAA-ACACATGAAGGTCAG
1 ATCTGTTATCTTCGATCTGCTCCCCG-TCTAATACAGA-G-ATGCCAA
* * *
35050210 ATATGCTATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAA
1 ATCTG-T-TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
35050257 ATC
1 ATC
35050260 ATCTTGGATA
Statistics
Matches: 182, Mismatches: 38, Indels: 16
0.77 0.16 0.07
Matches are distributed among these distances:
43 6 0.03
44 44 0.24
45 103 0.57
46 1 0.01
47 18 0.10
48 5 0.03
49 5 0.03
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.30
Consensus pattern (45 bp):
ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
Found at i:35050151 original size:89 final size:90
Alignment explanation
Indices: 35049986--35050169 Score: 271
Period size: 89 Copynumber: 2.1 Consensus size: 90
35049976 GGAAGGCGAT
** * * * *
35049986 ATCTGCTATCTTTGATCTGCTCCCTGTCTAATACAGAGAGGCCAAATCTGTTATCTTCGATCTGC
1 ATCTGCTATCTTCAATCTGATCCCCGTCTAATACAGAGAGGCCAAATCTATTATCTCCGATCTGC
*
35050051 TCCCCGTCTAATACAGAGACGCCAA
66 TACCCGTCTAATACAGAGACGCCAA
* *
35050076 ATCTGCT-TCTTCAATCTGATCCCCGTCTAATACAGAGATGCCAAATCTATTATCTCCGATTTGC
1 ATCTGCTATCTTCAATCTGATCCCCGTCTAATACAGAGAGGCCAAATCTATTATCTCCGATCTGC
*
35050140 TACCCGTCTAATACAGAGATGCCAA
66 TACCCGTCTAATACAGAGACGCCAA
35050165 ATCTG
1 ATCTG
35050170 TCATCTTGGA
Statistics
Matches: 84, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
89 77 0.92
90 7 0.08
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.30
Consensus pattern (90 bp):
ATCTGCTATCTTCAATCTGATCCCCGTCTAATACAGAGAGGCCAAATCTATTATCTCCGATCTGC
TACCCGTCTAATACAGAGACGCCAA
Found at i:35050331 original size:78 final size:78
Alignment explanation
Indices: 35050199--35050710 Score: 634
Period size: 78 Copynumber: 6.4 Consensus size: 78
35050189 ATGTAAACAC
* *
35050199 ATGAAGGTCAGATATGCTATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
* *
35050264 TGGATATGCTTCA
66 TGGATCTACTTCA
* * * *
35050277 ATAAAGGTCCA-ATCTGTTATTTCTTCGATCTGCTCCCTGTCTAATACAGAGATGCCAAATCATC
1 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
35050341 TTGGATCTACTTCA
65 TTGGATCTACTTCA
* * **
35050355 ATGAAGGTCAGATCTGCTGTGTCTTCGATCTACTCCCTATCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
*
35050420 TGGATCTACTTTA
66 TGGATCTACTTCA
* * * * ** *
35050433 ATGAAGGTCAGATCTGCTATGTCTTCGATTTGCTCTCTGTCGAATATGGAGATGTCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
*
35050498 TAGATCTACTTCAGCGTAAA
66 TGGATCTACTT---C----A
*
35050518 CACGTGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGTCAAATCA
1 -A--TGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCA
35050583 TCTTGGATCTACTTCA
63 TCTTGGATCTACTTCA
* *
35050599 ATGAAGGTCCA-ATCTGTTATGTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
1 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
35050663 TTGGATCTGA-TTCA
65 TTGGATCT-ACTTCA
* * * *
35050677 ATGAAGGTCAGATCTGTTGTGTATTTGATCTGCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCT
35050711 TCAATGAAGG
Statistics
Matches: 381, Mismatches: 38, Indels: 30
0.85 0.08 0.07
Matches are distributed among these distances:
77 4 0.01
78 299 0.78
79 5 0.01
80 1 0.00
81 1 0.00
85 2 0.01
86 1 0.00
88 68 0.18
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.33
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTACTTCA
Found at i:35050660 original size:166 final size:166
Alignment explanation
Indices: 35050356--35050670 Score: 470
Period size: 166 Copynumber: 1.9 Consensus size: 166
35050346 TCTACTTCAA
* *
35050356 TGAAGGTCAGATCTGCTGTGTCTTCGATCTACTCCCTATCTAATACAGAGATGCCAAATCATCTT
1 TGAAGGTCAGATCTGCTATGTCTTCGATCTACTCCCCATCTAATACAGAGATGCCAAATCATCTT
* * * * **
35050421 GGATCTACTTTAATGAAGGTCAGATCTGCTATGTCTTCGATTTGCTCTCTGTCGAATATGGAGAT
66 GGATCTACTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCGAATACAGAGAT
*
35050486 GTCAAATCATCTTAGATCTACTTCAGCGTAAACACG
131 GCCAAATCATCTTAGATCTACTTCAGCGTAAACACG
* * *
35050522 TGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGTCAAATCATCTT
1 TGAAGGTCAGATCTGCTATGTCTTCGATCTACTCCCCATCTAATACAGAGATGCCAAATCATCTT
* * *
35050587 GGATCTACTTCAATGAAGGTCCA-ATCTGTTATGTCTTTGATCTGCTCCCCGTCTAATACAGAGA
66 GGATCTACTTCAATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCGAATACAGAGA
*
35050651 TGCCAAATCATCTTGGATCT
130 TGCCAAATCATCTTAGATCT
35050671 GATTCAATGA
Statistics
Matches: 132, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
166 130 0.98
167 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (166 bp):
TGAAGGTCAGATCTGCTATGTCTTCGATCTACTCCCCATCTAATACAGAGATGCCAAATCATCTT
GGATCTACTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCGAATACAGAGAT
GCCAAATCATCTTAGATCTACTTCAGCGTAAACACG
Found at i:35050746 original size:37 final size:37
Alignment explanation
Indices: 35050661--35050747 Score: 129
Period size: 37 Copynumber: 2.4 Consensus size: 37
35050651 TGCCAAATCA
* * *
35050661 TCTTGGATCTGATTCAATGAAGGTCAGATCTGTTGTG
1 TCTTCGATCTGCTTCAATGAAGGTCAGATCTGTTATG
* *
35050698 TATTTGATCTGCTTCAATGAAGGTCAGATCTGTTATG
1 TCTTCGATCTGCTTCAATGAAGGTCAGATCTGTTATG
35050735 TCTTCGATCTGCT
1 TCTTCGATCTGCT
35050748 CTCCGTCGAA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.21, C:0.16, G:0.23, T:0.40
Consensus pattern (37 bp):
TCTTCGATCTGCTTCAATGAAGGTCAGATCTGTTATG
Found at i:35051116 original size:220 final size:220
Alignment explanation
Indices: 35050716--35051289 Score: 905
Period size: 220 Copynumber: 2.6 Consensus size: 220
35050706 CTGCTTCAAT
* * * *
35050716 GAAGGTCAGATCTGTTATGTCTTCGATCTGCTCTCCGTCGAATATGAAGATACCAAATCTGTTTC
1 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTC
* * *
35050781 TTCAATTTGTTCTCTGACAGTACAGAAATGTCAAATCATCTTAGATCTGCTTCAGCGTAAACACG
66 TTCGATTTGTTCTCTGACAGTACAGAGATGTCAAATCATCTTAGATCTGCTTCAGCGTAAACACA
* * * * *
35050846 TGAAAGCCAAATCTGCTATGTCTTCGATCTGGTCCTTGTCAACACAAGGATGCCAAATCATTTTG
131 TGAAAGCCAAATATGCTATGTCTTCGATCTGCTCCTTATAAACACAAGGATGCCAAATCATCTTG
*
35050911 GATCTACTTCGATGTGAAGACATCC
196 GATCTACTTCGATGTGAAAACATCC
* *
35050936 GAAGGTTAGATCTGCTATGTCTTTGATCTGCTCTCCGTCGAGTATGGAGATGCCAAATCTGTTTC
1 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTC
*
35051001 TTCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACA
66 TTCGATTTGTTCTCTGACAGTACAGAGATGTCAAATCATCTTAGATCTGCTTCAGCGTAAACACA
* *
35051066 TGAAAGCCAAATATGCTATGTCTTTGATCTGCTCCTTATAAACGCAAGGATGCCAAATCATCTTG
131 TGAAAGCCAAATATGCTATGTCTTCGATCTGCTCCTTATAAACACAAGGATGCCAAATCATCTTG
*
35051131 GATCTACTTCGATGTGAAAACATCT
196 GATCTACTTCGATGTGAAAACATCC
* *
35051156 GAAGGTTAGATCTACTATGTCTTCGATCTGCTCTCTGTCGAATATGGAGATGCCAAATCTGTTTC
1 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTC
* * * ** *
35051221 TTCGATTTGTTCTCTGACAATACAGAGATGTTAAATCATCTTGGATCCACTTCAGCGTAAACACC
66 TTCGATTTGTTCTCTGACAGTACAGAGATGTCAAATCATCTTAGATCTGCTTCAGCGTAAACACA
35051286 TGAA
131 TGAA
35051290 GGTCAAATCT
Statistics
Matches: 324, Mismatches: 30, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
220 324 1.00
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (220 bp):
GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTC
TTCGATTTGTTCTCTGACAGTACAGAGATGTCAAATCATCTTAGATCTGCTTCAGCGTAAACACA
TGAAAGCCAAATATGCTATGTCTTCGATCTGCTCCTTATAAACACAAGGATGCCAAATCATCTTG
GATCTACTTCGATGTGAAAACATCC
Found at i:35052873 original size:40 final size:40
Alignment explanation
Indices: 35052690--35052859 Score: 225
Period size: 40 Copynumber: 4.3 Consensus size: 40
35052680 TCCTCGTTCA
* * * * *
35052690 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
35052729 AATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
35052769 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
35052809 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
35052849 AAGGCCTTCGG
1 AATGCCTTCGG
35052860 ATCTTAGTCC
Statistics
Matches: 116, Mismatches: 14, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
39 33 0.28
40 83 0.72
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:35065373 original size:40 final size:40
Alignment explanation
Indices: 35065329--35065509 Score: 237
Period size: 40 Copynumber: 4.6 Consensus size: 40
35065319 TTACAGCAAG
*
35065329 ATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAA
1 ATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAA
*
35065369 ATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAA
1 ATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAA
* *
35065409 ATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAA
1 ATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAA
* * *
35065448 ATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCAC-A
1 ATGCCTTCGGGA-CTTAGCCCGGAT-TTAGTAAC-TCGCACAA
35065488 A-GCCTTCGGGACTTAGCCCGGA
1 ATGCCTTCGGGACTTAGCCCGGA
35065510 CAGCATTCAA
Statistics
Matches: 127, Mismatches: 9, Indels: 11
0.86 0.06 0.07
Matches are distributed among these distances:
38 2 0.02
39 49 0.39
40 69 0.54
41 7 0.06
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
ATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAA
Found at i:35065437 original size:79 final size:80
Alignment explanation
Indices: 35065329--35065509 Score: 237
Period size: 79 Copynumber: 2.3 Consensus size: 80
35065319 TTACAGCAAG
* *
35065329 ATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGAT
1 ATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGGAT
*
35065393 -TTAGTAAC-TCGCACAA
65 ATT-GTAACTTAGCAC-A
* **
35065409 ATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGATA
1 ATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATA
*
35065473 TTGTCACTTAGCACA
66 TTGTAACTTAGCACA
35065488 A-GCCTTCGGGACTTAGCCCGGA
1 ATGCCTTCGGGACTTAGCCCGGA
35065510 CAGCATTCAA
Statistics
Matches: 90, Mismatches: 7, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
78 12 0.13
79 60 0.67
80 18 0.20
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (80 bp):
ATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATA
TTGTAACTTAGCACA
Found at i:35067793 original size:27 final size:27
Alignment explanation
Indices: 35067746--35067903 Score: 173
Period size: 27 Copynumber: 5.9 Consensus size: 27
35067736 CAAGGCTGCT
* *
35067746 AGATATTGTGAC-GAAGTCACCAGATAC
1 AGATATTGTGGCAG-AGCCACCAGATAC
*
35067773 AGATATTGTGGCAGAGCCACCAGA-AT
1 AGATATTGTGGCAGAGCCACCAGATAC
*
35067799 AGATATATGTGGTAGAGCCACCAGAT-C
1 AGATAT-TGTGGCAGAGCCACCAGATAC
* *
35067826 AGATAATCGTGGCATAGCCACCAGA-AC
1 AGAT-ATTGTGGCAGAGCCACCAGATAC
35067853 AGATATATGTGGCAGAGCCACCAGAT-C
1 AGATAT-TGTGGCAGAGCCACCAGATAC
*
35067880 AGATAATTGTGGCATAGCCACCAG
1 AGAT-ATTGTGGCAGAGCCACCAG
35067904 GACGCTTCCT
Statistics
Matches: 112, Mismatches: 11, Indels: 16
0.81 0.08 0.12
Matches are distributed among these distances:
26 9 0.08
27 98 0.88
28 5 0.04
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.20
Consensus pattern (27 bp):
AGATATTGTGGCAGAGCCACCAGATAC
Found at i:35067838 original size:54 final size:54
Alignment explanation
Indices: 35067763--35067903 Score: 230
Period size: 54 Copynumber: 2.6 Consensus size: 54
35067753 GTGACGAAGT
* * *
35067763 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAATAGATATATGTGGTAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
35067817 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
35067871 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
35067904 GACGCTTCCT
Statistics
Matches: 81, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
53 5 0.06
54 76 0.94
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:35068071 original size:28 final size:26
Alignment explanation
Indices: 35068009--35068071 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
35067999 AAAGTAACCC
** * *
35068009 TAGGGGTATAATGGTAATTTTTCACC
1 TAGGGGTATAACAGTAATTTTCCACA
35068035 TAGGGGTATAACAGTAATTTTCCATACA
1 TAGGGGTATAACAGTAATTTTCC--ACA
35068063 TAGGGGTAT
1 TAGGGGTAT
35068072 TCAAGTAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 20 0.65
28 11 0.35
ACGTcount: A:0.30, C:0.11, G:0.24, T:0.35
Consensus pattern (26 bp):
TAGGGGTATAACAGTAATTTTCCACA
Found at i:35069539 original size:26 final size:26
Alignment explanation
Indices: 35069509--35069608 Score: 182
Period size: 26 Copynumber: 3.8 Consensus size: 26
35069499 TGAAATTCCC
35069509 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
35069535 ATCATGGAACATTTATCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
35069561 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
35069587 ATCATGGAACATTTACCTAACC
1 ATCATGGAACATTTACCTAACC
35069609 AATTTTCAAT
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 70 1.00
ACGTcount: A:0.36, C:0.26, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:35071080 original size:14 final size:14
Alignment explanation
Indices: 35071061--35071089 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
35071051 ATTCATATCT
35071061 ATATCATGATGACC
1 ATATCATGATGACC
35071075 ATATCATGATGACC
1 ATATCATGATGACC
35071089 A
1 A
35071090 AAAAAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.28
Consensus pattern (14 bp):
ATATCATGATGACC
Found at i:35072435 original size:26 final size:26
Alignment explanation
Indices: 35072406--35072458 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
35072396 TTTCCAAGTT
35072406 ATAGTACCTTTAAAATATTTAAGCAA
1 ATAGTACCTTTAAAATATTTAAGCAA
35072432 ATAGTACCTTTAAAATATTTAAGCAA
1 ATAGTACCTTTAAAATATTTAAGCAA
35072458 A
1 A
35072459 CACTTTAGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.47, C:0.11, G:0.08, T:0.34
Consensus pattern (26 bp):
ATAGTACCTTTAAAATATTTAAGCAA
Found at i:35077428 original size:170 final size:170
Alignment explanation
Indices: 35077141--35077477 Score: 611
Period size: 170 Copynumber: 2.0 Consensus size: 170
35077131 GGCTATATAC
** *
35077141 TTGTAAATTGAGATTCTTTTTTAAATGATTGAATAACTAATGATTATATGCAAGCCTAATTCTAA
1 TTGTAAATTGAGATTCTAGTTTAAATGATTGAAAAACTAATGATTATATGCAAGCCTAATTCTAA
35077206 GTTTAAGCATAAGTGGGTGAGCATGAAATGGTAAGTTGGTATGAGTTAGGTATGATATTTTTGGG
66 GTTTAAGCATAAGTGGGTGAGCATGAAATGGTAAGTTGGTATGAGTTAGGTATGATATTTTTGGG
35077271 TTTAAATGTAAGTCAATTTGAGTGTGTTGTGGCTTTTTTG
131 TTTAAATGTAAGTCAATTTGAGTGTGTTGTGGCTTTTTTG
* *
35077311 TTGTGAATTGAGATTCTAGTTTAAATGATTGAAAAACTAATGGTTATATGCAAGCCTAATTCTAA
1 TTGTAAATTGAGATTCTAGTTTAAATGATTGAAAAACTAATGATTATATGCAAGCCTAATTCTAA
* *
35077376 GTTTAAGCATAAGTGGGTGAGCATGAAGTGGTAAGTTGGTATGAGTTAGGTATGGTATTTTTGGG
66 GTTTAAGCATAAGTGGGTGAGCATGAAATGGTAAGTTGGTATGAGTTAGGTATGATATTTTTGGG
35077441 TTTAAATGTAAGTCAATTTGAGTGTGTTGTGGCTTTT
131 TTTAAATGTAAGTCAATTTGAGTGTGTTGTGGCTTTT
35077478 GCATTTTAAA
Statistics
Matches: 160, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
170 160 1.00
ACGTcount: A:0.29, C:0.06, G:0.25, T:0.40
Consensus pattern (170 bp):
TTGTAAATTGAGATTCTAGTTTAAATGATTGAAAAACTAATGATTATATGCAAGCCTAATTCTAA
GTTTAAGCATAAGTGGGTGAGCATGAAATGGTAAGTTGGTATGAGTTAGGTATGATATTTTTGGG
TTTAAATGTAAGTCAATTTGAGTGTGTTGTGGCTTTTTTG
Found at i:35081043 original size:12 final size:12
Alignment explanation
Indices: 35081011--35081044 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
35081001 TTATCATACA
**
35081011 CTCTTTATCGAG
1 CTCTTTATTAAG
35081023 CTCTTTATTAAG
1 CTCTTTATTAAG
35081035 CTCTTTATTA
1 CTCTTTATTA
35081045 CCTCCATCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.21, C:0.21, G:0.09, T:0.50
Consensus pattern (12 bp):
CTCTTTATTAAG
Found at i:35081301 original size:2 final size:2
Alignment explanation
Indices: 35081296--35081333 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
35081286 ATATATACAT
*
35081296 AG AG AG AG AG AG AG AG AG AA AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
35081334 GTAAAAACAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:35082066 original size:103 final size:103
Alignment explanation
Indices: 35081887--35082095 Score: 355
Period size: 103 Copynumber: 2.0 Consensus size: 103
35081877 GCAAGCTGAA
*
35081887 GTCTTTGAGCTGTAAAATAAAATCATAGCCAAGTTATGCATTTCTTCAAATTTCAGACAAATGGA
1 GTCTTTGAGCTGTAAAACAAAATCATAGCCAAGTTATGCATTTCTTCAAATTTCAGACAAATGGA
* * * *
35081952 TCTCAGGAGTCCAAGAGTATTAGACTCGAGTTTGCATG
66 TCTAAAGAGTCCAAGAGTATTAGACTCGAGATTGAATG
* *
35081990 GTCTTTGAGCTGTAAAACAAAATCATAGCCAAGTTATGCGTTTCTTCAAATTTCAGATAAATGGA
1 GTCTTTGAGCTGTAAAACAAAATCATAGCCAAGTTATGCATTTCTTCAAATTTCAGACAAATGGA
35082055 TCTAAAGAGTCCAAGAGTATTAGACTCGAGATTGAATG
66 TCTAAAGAGTCCAAGAGTATTAGACTCGAGATTGAATG
35082093 GTC
1 GTC
35082096 ACTGAATTTC
Statistics
Matches: 99, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
103 99 1.00
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.31
Consensus pattern (103 bp):
GTCTTTGAGCTGTAAAACAAAATCATAGCCAAGTTATGCATTTCTTCAAATTTCAGACAAATGGA
TCTAAAGAGTCCAAGAGTATTAGACTCGAGATTGAATG
Found at i:35082828 original size:15 final size:15
Alignment explanation
Indices: 35082808--35082837 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
35082798 TCTACTAAAA
35082808 AATGGGCAAATTAGT
1 AATGGGCAAATTAGT
35082823 AATGGGCAAATTAGT
1 AATGGGCAAATTAGT
35082838 CTCTATACGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.27, T:0.27
Consensus pattern (15 bp):
AATGGGCAAATTAGT
Found at i:35088732 original size:20 final size:21
Alignment explanation
Indices: 35088695--35088736 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
35088685 ATTATTTTGT
35088695 AATTAAAAAGAGAAATAAATA
1 AATTAAAAAGAGAAATAAATA
*
35088716 AATTAAATAGA-AAATAAATA
1 AATTAAAAAGAGAAATAAATA
35088736 A
1 A
35088737 TAATTTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.21
Consensus pattern (21 bp):
AATTAAAAAGAGAAATAAATA
Found at i:35089174 original size:30 final size:31
Alignment explanation
Indices: 35089140--35089202 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
35089130 ACTTGTTTTA
*
35089140 TTGTTAA-TTTTGTTATTATTTTAAAGGTAT
1 TTGTTAATTTTTGTTATTATTTTAAAGGCAT
* *
35089170 TTGTTAATTTTTTTTATTATTTTAGAGGCAT
1 TTGTTAATTTTTGTTATTATTTTAAAGGCAT
35089201 TT
1 TT
35089203 ACTTGTTAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 7 0.24
31 22 0.76
ACGTcount: A:0.24, C:0.02, G:0.13, T:0.62
Consensus pattern (31 bp):
TTGTTAATTTTTGTTATTATTTTAAAGGCAT
Found at i:35091196 original size:18 final size:18
Alignment explanation
Indices: 35091175--35091213 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
35091165 TGAATTCCAC
*
35091175 AATTCGAATAAATTT-AAT
1 AATTCAAAT-AATTTAAAT
35091193 AATTCAAATAATTTAAAT
1 AATTCAAATAATTTAAAT
35091211 AAT
1 AAT
35091214 AAATTAGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (18 bp):
AATTCAAATAATTTAAAT
Found at i:35091332 original size:18 final size:19
Alignment explanation
Indices: 35091293--35091332 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
35091283 AACTACAAAA
* *
35091293 AAAGTTTAAAATAATTTTT
1 AAAGTTCAAAATAATTTAT
35091312 AAAGTTCAAAAT-ATTTAT
1 AAAGTTCAAAATAATTTAT
35091330 AAA
1 AAA
35091333 AATTTCAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.40
Consensus pattern (19 bp):
AAAGTTCAAAATAATTTAT
Found at i:35091404 original size:20 final size:22
Alignment explanation
Indices: 35091367--35091406 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
35091357 AAATATAAAA
*
35091367 ATATAAAATAATTCTAAAAAGT
1 ATATAAAATAAGTCTAAAAAGT
35091389 ATATAAAA-AAGT-TAAAAA
1 ATATAAAATAAGTCTAAAAA
35091407 TTTAAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 3 0.18
22 8 0.47
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.28
Consensus pattern (22 bp):
ATATAAAATAAGTCTAAAAAGT
Found at i:35104139 original size:16 final size:16
Alignment explanation
Indices: 35104118--35104151 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
35104108 TTCCAAAGTT
35104118 AGAATAGAGGATTCCG
1 AGAATAGAGGATTCCG
35104134 AGAATAGAGGATTCCG
1 AGAATAGAGGATTCCG
35104150 AG
1 AG
35104152 CTCATTCTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.38, C:0.12, G:0.32, T:0.18
Consensus pattern (16 bp):
AGAATAGAGGATTCCG
Found at i:35104799 original size:54 final size:54
Alignment explanation
Indices: 35104717--35104849 Score: 243
Period size: 53 Copynumber: 2.5 Consensus size: 54
35104707 CATCTTATGG
35104717 CGGGATTACCAGTCCAGGCTAAATCCCCCCAAATATAAACTCATAGACTGATGT
1 CGGGATTACCAGTCCAGGCTAAATCCCCCCAAATATAAACTCATAGACTGATGT
*
35104771 CGGGATTACCAGTCCAGGCTAAAT-CCCCCAAATATAAACTCATAGAGTGATGT
1 CGGGATTACCAGTCCAGGCTAAATCCCCCCAAATATAAACTCATAGACTGATGT
35104824 CGGGATTA-CAGTCCAGGCTAAATCCC
1 CGGGATTACCAGTCCAGGCTAAATCCC
35104850 TTGTGACAAC
Statistics
Matches: 77, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
52 15 0.19
53 38 0.49
54 24 0.31
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (54 bp):
CGGGATTACCAGTCCAGGCTAAATCCCCCCAAATATAAACTCATAGACTGATGT
Found at i:35107842 original size:15 final size:15
Alignment explanation
Indices: 35107824--35107867 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
35107814 GAAGCCCAGA
35107824 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
35107839 ATAAAGAAATTCATG
1 ATAAAGAAATCCAAG
*
35107854 ATAAGGAAATCCAA
1 ATAAAGAAATCCAA
35107868 TTTACAGCTC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.57, C:0.11, G:0.14, T:0.18
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:35112316 original size:40 final size:40
Alignment explanation
Indices: 35112286--35112542 Score: 248
Period size: 39 Copynumber: 6.5 Consensus size: 40
35112276 GCTACTCGTT
*
35112286 CAAATGCCTTCGGGACATAGCCCGATTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCGCA
*
35112326 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCC-GATTATAGTAACTCGCA
* *
35112366 CCAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCC-GATTATAGTAACTCGCA
* * *
35112405 CCAATGCCTTCAGG-CTTAGCCCGGAAT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCC-GATTATAGTAACTCGCA
* *
35112444 CCAATGCCTTC-GG-CTTAGCCCGGAAT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCC-GATTATAGTAACTCGCA
* * * * *
35112482 CCAATGCCTTC-GGATCTTAGTCCGGA-TATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAG-CCCGATTATAGTAAC-TCGCA
35112523 CAAA-GCCTTCGGGACTTAGC
1 CAAATGCCTTCGGGACTTAGC
35112543 ACGGACATCA
Statistics
Matches: 199, Mismatches: 11, Indels: 15
0.88 0.05 0.07
Matches are distributed among these distances:
38 40 0.20
39 74 0.37
40 69 0.35
41 16 0.08
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCGCA
Found at i:35112468 original size:38 final size:39
Alignment explanation
Indices: 35112288--35112494 Score: 319
Period size: 39 Copynumber: 5.3 Consensus size: 39
35112278 TACTCGTTCA
* * *
35112288 AATGCCTTCGGGACATAGCCC-GATTATAGTAACTCGCACA
1 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACC
* *
35112328 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
1 AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACC
35112368 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACC
1 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACC
*
35112407 AATGCCTTCAGGCTTAGCCCGGAATTAGTAACTCGCACC
1 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACC
35112446 AATGCCTTC-GGCTTAGCCCGGAATTAGTAACTCGCACC
1 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACC
35112484 AATGCCTTCGG
1 AATGCCTTCGG
35112495 ATCTTAGTCC
Statistics
Matches: 159, Mismatches: 6, Indels: 5
0.94 0.04 0.03
Matches are distributed among these distances:
38 38 0.24
39 73 0.46
40 44 0.28
41 4 0.03
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACC
Found at i:35112486 original size:77 final size:79
Alignment explanation
Indices: 35112288--35112500 Score: 317
Period size: 77 Copynumber: 2.7 Consensus size: 79
35112278 TACTCGTTCA
* * * *
35112288 AATGCCTTCGGGACATAGCCC-GATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
1 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACCAATGCCTTCAGGACTTAACCCGGA
*
35112352 TTTAGTAACTCGCACC
64 ATTAGTAACTCGCACC
*
35112368 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACCAATGCCTTCAGG-CTTAGCCCGGAAT
1 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACCAATGCCTTCAGGACTTAACCCGGAAT
35112432 TAGTAACTCGCACC
66 TAGTAACTCGCACC
35112446 AATGCCTTC-GGCTTAGCCCGGAATTAGTAACTCGCACCAATGCCTTC-GGATCTTA
1 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACCAATGCCTTCAGGA-CTTA
35112501 GTCCGGATAT
Statistics
Matches: 124, Mismatches: 6, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
76 2 0.02
77 38 0.31
78 38 0.31
79 31 0.25
80 15 0.12
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.24
Consensus pattern (79 bp):
AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACCAATGCCTTCAGGACTTAACCCGGAAT
TAGTAACTCGCACC
Found at i:35120535 original size:38 final size:40
Alignment explanation
Indices: 35120419--35120638 Score: 258
Period size: 40 Copynumber: 5.6 Consensus size: 40
35120409 TACTCGTTCA
* * *
35120419 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACC
* *
35120459 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACC
35120499 AATGCCTTCGGG-CTTAGCCC-GAATTAGTAACTCGCACC
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACC
35120537 AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA-C
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACC
* * * *
35120575 AATGCCTTC-GGATCTTAGTCCGG-ATATGGTCACTTAGCA-C
1 AATGCCTTCGGGA-CTTAGCCCGGAAT-TAGTAAC-TCGCACC
*
35120615 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
35120639 CATCATTCGA
Statistics
Matches: 161, Mismatches: 11, Indels: 15
0.86 0.06 0.08
Matches are distributed among these distances:
37 2 0.01
38 49 0.30
39 37 0.23
40 68 0.42
41 5 0.03
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACC
Found at i:35137411 original size:23 final size:25
Alignment explanation
Indices: 35137361--35137413 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
35137351 ATGTCATAAA
*
35137361 CATAACTTCATCATATAACTTATAC
1 CATAACTTCATCATATAACATATAC
35137386 CATAAC-TCATTCATA-AACATAT-C
1 CATAACTTCA-TCATATAACATATAC
35137409 CATAA
1 CATAA
35137414 TCAAGCCAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 6 0.23
24 9 0.35
25 11 0.42
ACGTcount: A:0.43, C:0.25, G:0.00, T:0.32
Consensus pattern (25 bp):
CATAACTTCATCATATAACATATAC
Found at i:35148132 original size:13 final size:13
Alignment explanation
Indices: 35148114--35148140 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
35148104 GAAGTAATTG
35148114 CACACGGGCGTGT
1 CACACGGGCGTGT
35148127 CACACGGGCGTGT
1 CACACGGGCGTGT
35148140 C
1 C
35148141 CCTGCCGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:35148225 original size:25 final size:25
Alignment explanation
Indices: 35148191--35148241 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
35148181 TTTTGAAGGT
35148191 TCTTAGGCATTCAAAAGCCTATAAA
1 TCTTAGGCATTCAAAAGCCTATAAA
35148216 TCTTAGGCATTCAAAAGCCTATAAA
1 TCTTAGGCATTCAAAAGCCTATAAA
35148241 T
1 T
35148242 ACACCCTGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (25 bp):
TCTTAGGCATTCAAAAGCCTATAAA
Found at i:35150176 original size:13 final size:13
Alignment explanation
Indices: 35150158--35150184 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
35150148 AAGTAAACCG
35150158 AAATTGGAATCCA
1 AAATTGGAATCCA
35150171 AAATTGGAATCCA
1 AAATTGGAATCCA
35150184 A
1 A
35150185 TTATAATATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.15, G:0.15, T:0.22
Consensus pattern (13 bp):
AAATTGGAATCCA
Found at i:35150720 original size:42 final size:42
Alignment explanation
Indices: 35150661--35150749 Score: 178
Period size: 42 Copynumber: 2.1 Consensus size: 42
35150651 TTAAAAGGTC
35150661 ACACGCCCGTGTGAACAGGCCATGTGCCTCACATGGTCTTAG
1 ACACGCCCGTGTGAACAGGCCATGTGCCTCACATGGTCTTAG
35150703 ACACGCCCGTGTGAACAGGCCATGTGCCTCACATGGTCTTAG
1 ACACGCCCGTGTGAACAGGCCATGTGCCTCACATGGTCTTAG
35150745 ACACG
1 ACACG
35150750 ATCGTGTGTC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.22, C:0.31, G:0.26, T:0.20
Consensus pattern (42 bp):
ACACGCCCGTGTGAACAGGCCATGTGCCTCACATGGTCTTAG
Found at i:35153477 original size:79 final size:79
Alignment explanation
Indices: 35153339--35153558 Score: 250
Period size: 79 Copynumber: 2.8 Consensus size: 79
35153329 CCCAAGAAAT
* ** * * *
35153339 CTTCGGGATTTAGCCGGATATAACCACTTGCAC-AAGGCCTTCGGGTCTTAGCCCGGATATGGTC
1 CTTCGGGACTTAGCCGGATATAGTCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAG-C
*
35153403 -ACTAGCATAAATGC
65 AACTAGCACAAATGC
* *
35153417 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGCCTTCGGGTCTTAGCCC-GATATAGC
1 CTTCGGGACTTAG-CCGGATATAGTCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGC
*
35153481 AACTCGCACAAATGC
65 AACTAGCACAAATGC
* * *
35153496 CTTC-GGATCTTAGTCCGGTTATAGTCACCTAGCACAAAAGCTTTCGGGACTTAGCCCGGATAT
1 CTTCGGGA-CTTAG-CCGGATATAGTCA-CTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATAT
35153559 CATTCGAATA
Statistics
Matches: 121, Mismatches: 15, Indels: 9
0.83 0.10 0.06
Matches are distributed among these distances:
78 16 0.13
79 54 0.45
80 46 0.38
81 5 0.04
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (79 bp):
CTTCGGGACTTAGCCGGATATAGTCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGCA
ACTAGCACAAATGC
Found at i:35153490 original size:39 final size:40
Alignment explanation
Indices: 35153339--35153558 Score: 243
Period size: 40 Copynumber: 5.5 Consensus size: 40
35153329 CCCAAGAAAT
** * *
35153339 CTTCGGGAT-TTAG-CCGGATATAACCACTTGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
35153377 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
35153417 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
35153457 CTTCGGGTCTTAGCCC-GATATAG-CAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * * *
35153496 CTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAATGC
* *
35153537 TTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
35153559 CATTCGAATA
Statistics
Matches: 152, Mismatches: 23, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
37 1 0.01
38 12 0.08
39 48 0.32
40 62 0.41
41 29 0.19
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:35162776 original size:28 final size:28
Alignment explanation
Indices: 35162744--35162841 Score: 80
Period size: 28 Copynumber: 3.5 Consensus size: 28
35162734 AAAACAATAT
35162744 AAATATATAAAATATATTAAAAAATTAA
1 AAATATATAAAATATATTAAAAAATTAA
*
35162772 AAATATATATACAA-ATA-TACAAAAATGAA
1 AAATATATA-A-AATATATTA-AAAAATTAA
* * *
35162801 AAA-ATATAAAAAATTATT-GAAATTTCAA
1 AAATATATAAAATA-TATTAAAAAATT-AA
35162829 AAATAT-TAAAATA
1 AAATATATAAAATA
35162842 ATGAAATAAC
Statistics
Matches: 57, Mismatches: 5, Indels: 16
0.73 0.06 0.21
Matches are distributed among these distances:
26 2 0.04
27 6 0.11
28 29 0.51
29 18 0.32
30 2 0.04
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.30
Consensus pattern (28 bp):
AAATATATAAAATATATTAAAAAATTAA
Found at i:35162780 original size:30 final size:29
Alignment explanation
Indices: 35162744--35162818 Score: 84
Period size: 29 Copynumber: 2.6 Consensus size: 29
35162734 AAAACAATAT
*
35162744 AAATATATAAAATATATTAAAAAATTAAA
1 AAATATATAAAATATATTAAAAAATGAAA
*
35162773 AATATATATACAAATATA--CAAAAATGAAA
1 AA-ATATATA-AAATATATTAAAAAATGAAA
*
35162802 AAATATAAAAAAT-TATT
1 AAATATATAAAATATATT
35162819 GAAATTTCAA
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
26 2 0.05
27 4 0.10
28 6 0.15
29 13 0.33
30 7 0.18
31 7 0.18
ACGTcount: A:0.67, C:0.03, G:0.01, T:0.29
Consensus pattern (29 bp):
AAATATATAAAATATATTAAAAAATGAAA
Found at i:35162790 original size:38 final size:37
Alignment explanation
Indices: 35162732--35162812 Score: 87
Period size: 38 Copynumber: 2.2 Consensus size: 37
35162722 TTATAAAACG
*
35162732 TAAAAACAATATAAATATATA-AAATATATTAAAAAAT-
1 TAAAAACAATATAAATATATACAAA-A-ATGAAAAAATA
*
35162769 TAAAAATATATATACAA-ATATACAAAAATGAAAAAATA
1 TAAAAACA-ATATA-AATATATACAAAAATGAAAAAATA
35162807 TAAAAA
1 TAAAAA
35162813 ATTATTGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
37 16 0.42
38 17 0.45
39 5 0.13
ACGTcount: A:0.69, C:0.04, G:0.01, T:0.26
Consensus pattern (37 bp):
TAAAAACAATATAAATATATACAAAAATGAAAAAATA
Found at i:35162795 original size:21 final size:18
Alignment explanation
Indices: 35162744--35162841 Score: 60
Period size: 18 Copynumber: 5.3 Consensus size: 18
35162734 AAAACAATAT
35162744 AAATATATAAAATATATTA
1 AAATATA-AAAATATATTA
*
35162763 AAAAATTAAAAATATATATA
1 AAATA-TAAAAATATAT-TA
*
35162783 CAAATATACAAAA-ATGA-AA
1 -AAATATA-AAAATAT-ATTA
*
35162802 AAATATAAAAA-ATTATTG
1 AAATATAAAAATA-TATTA
* *
35162820 AAATTTCAAAA-ATATTA
1 AAATATAAAAATATATTA
35162837 AAATA
1 AAATA
35162842 ATGAAATAAC
Statistics
Matches: 63, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
17 14 0.22
18 18 0.29
19 14 0.22
20 8 0.13
21 9 0.14
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.30
Consensus pattern (18 bp):
AAATATAAAAATATATTA
Found at i:35163013 original size:10 final size:10
Alignment explanation
Indices: 35162998--35163143 Score: 66
Period size: 9 Copynumber: 15.3 Consensus size: 10
35162988 GGAATGACAT
35162998 AAAATTATAA
1 AAAATTATAA
35163008 AAAATTATTAGA
1 AAAATTA-TA-A
*
35163020 ATAA-TA-AA
1 AAAATTATAA
35163028 AAAATTAT-A
1 AAAATTATAA
*
35163037 TAAA-T-TAA
1 AAAATTATAA
*
35163045 AAAA--ATGA
1 AAAATTATAA
*
35163053 AAAATTGT-A
1 AAAATTATAA
*
35163062 AAAATTACAA
1 AAAATTATAA
*
35163072 AAAGA-TATTTA
1 AAA-ATTA-TAA
*
35163083 AAAA-TATAG
1 AAAATTATAA
*
35163092 AATATTATAA
1 AAAATTATAA
35163102 AAATATTATAA
1 AAA-ATTATAA
35163113 AAAA-TATAGA
1 AAAATTATA-A
*
35163123 AAAATGA-AA
1 AAAATTATAA
35163132 AAAA-TATAA
1 AAAATTATAA
35163141 AAA
1 AAA
35163144 TTACAAATTA
Statistics
Matches: 103, Mismatches: 17, Indels: 33
0.67 0.11 0.22
Matches are distributed among these distances:
7 1 0.01
8 16 0.16
9 32 0.31
10 30 0.29
11 20 0.19
12 4 0.04
ACGTcount: A:0.67, C:0.01, G:0.05, T:0.27
Consensus pattern (10 bp):
AAAATTATAA
Found at i:35163047 original size:19 final size:18
Alignment explanation
Indices: 35162999--35163049 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
35162989 GAATGACATA
*
35162999 AAATTATAAAAAATTATT
1 AAATTAAAAAAAATTATT
*
35163017 AGAATAATAAAAAAATTATAT
1 A-AATTA-AAAAAAATTAT-T
35163038 AAATTAAAAAAA
1 AAATTAAAAAAA
35163050 TGAAAAATTG
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
18 1 0.04
19 10 0.37
20 14 0.52
21 2 0.07
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (18 bp):
AAATTAAAAAAAATTATT
Found at i:35163055 original size:25 final size:25
Alignment explanation
Indices: 35163027--35163074 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
35163017 AGAATAATAA
*
35163027 AAAAATTATATAAATTAAAAAAATG
1 AAAAATTATAAAAATTAAAAAAATG
* *
35163052 AAAAATTGTAAAAATTACAAAAA
1 AAAAATTATAAAAATTAAAAAAA
35163075 GATATTTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.25
Consensus pattern (25 bp):
AAAAATTATAAAAATTAAAAAAATG
Found at i:35163104 original size:30 final size:30
Alignment explanation
Indices: 35163065--35163123 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
35163055 AATTGTAAAA
35163065 ATTACAAAAAGATATT-T-AAAAATATAGAAT
1 ATTAC-AAAA-ATATTATAAAAAATATAGAAT
*
35163095 ATTATAAAAATATTATAAAAAATATAGAA
1 ATTACAAAAATATTATAAAAAATATAGAA
35163124 AAATGAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
28 5 0.19
29 5 0.19
30 16 0.62
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.31
Consensus pattern (30 bp):
ATTACAAAAATATTATAAAAAATATAGAAT
Found at i:35163134 original size:30 final size:29
Alignment explanation
Indices: 35163070--35163143 Score: 75
Period size: 30 Copynumber: 2.6 Consensus size: 29
35163060 TAAAAATTAC
* *
35163070 AAAAAGATATT-T-AAAAATATAGAATATT
1 AAAAA-ATATTATAAAAAATATAGAAAATG
35163098 ATAAAAATATTATAAAAAATATAGAAAAATG
1 A-AAAAATATTATAAAAAATATAG-AAAATG
35163129 AAAAAA-A-TATAAAAA
1 AAAAAATATTATAAAAA
35163144 TTACAAATTA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
28 14 0.35
29 6 0.15
30 15 0.38
31 5 0.12
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (29 bp):
AAAAAATATTATAAAAAATATAGAAAATG
Found at i:35163142 original size:17 final size:18
Alignment explanation
Indices: 35163111--35163144 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
35163101 AAAATATTAT
35163111 AAAAAATATAGAAAAATG
1 AAAAAATATAGAAAAATG
*
35163129 AAAAAA-ATATAAAAAT
1 AAAAAATATAGAAAAAT
35163145 TACAAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (18 bp):
AAAAAATATAGAAAAATG
Found at i:35163476 original size:12 final size:13
Alignment explanation
Indices: 35163459--35163487 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
35163449 TGTTTCATAA
35163459 ATTTTAAA-TTTT
1 ATTTTAAATTTTT
35163471 ATTTTAAATTTTT
1 ATTTTAAATTTTT
35163484 ATTT
1 ATTT
35163488 AATTTATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
ATTTTAAATTTTT
Found at i:35163492 original size:18 final size:18
Alignment explanation
Indices: 35163456--35163516 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 18
35163446 TAATGTTTCA
* *
35163456 TAAATTTTAAATTTTATTT
1 TAAATTTT-TATTTAATTT
35163475 TAAATTTTTATTTAA-TT
1 TAAATTTTTATTTAATTT
35163492 TATAATATTTTA-TTAATTTT
1 TA-AAT-TTTTATTTAA-TTT
35163512 TAAAT
1 TAAAT
35163517 ATTATACAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
17 4 0.11
18 12 0.33
19 16 0.44
20 4 0.11
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TAAATTTTTATTTAATTT
Found at i:35163508 original size:11 final size:9
Alignment explanation
Indices: 35163490--35163725 Score: 58
Period size: 9 Copynumber: 25.4 Consensus size: 9
35163480 TTTTATTTAA
35163490 TTTATAATAT
1 TTTATAAT-T
35163500 TTTATTAATT
1 TTTA-TAATT
35163510 TTTA-AATAT
1 TTTATAAT-T
* *
35163519 TATACAATT
1 TTTATAATT
*
35163528 ATTT-TTATT
1 -TTTATAATT
35163537 TTTAATAATT
1 TTT-ATAATT
***
35163547 TACCTAATTTT
1 TTTATAA--TT
35163558 TTTATAATT
1 TTTATAATT
*
35163567 TATAT-ATT
1 TTTATAATT
*
35163575 TTTCT--TT
1 TTTATAATT
* *
35163582 TTAATAAAT
1 TTTATAATT
*
35163591 TTTA-CATT
1 TTTATAATT
* *
35163599 TTAATAA-A
1 TTTATAATT
35163607 TTTATATATT
1 TTTATA-ATT
* *
35163617 TATATATTTT
1 TTTATA-ATT
35163627 TATTTATAACTT
1 T-TT-ATAA-TT
* *
35163639 TTTACACTT
1 TTTATAATT
*
35163648 TTTATATCTT
1 TTTATA-ATT
35163658 TTTAGT-ATT
1 TTTA-TAATT
*
35163667 TTTAAAATT
1 TTTATAATT
35163676 TTTATATATT
1 TTTATA-ATT
35163686 TTTATAATT
1 TTTATAATT
* *
35163695 ATCTATATTT
1 -TTTATAATT
*
35163705 TTTATTA-T
1 TTTATAATT
*
35163713 TTTAAAATT
1 TTTATAATT
35163722 TTTA
1 TTTA
35163726 ATGATTTTAA
Statistics
Matches: 162, Mismatches: 42, Indels: 45
0.65 0.17 0.18
Matches are distributed among these distances:
7 5 0.03
8 28 0.17
9 56 0.35
10 53 0.33
11 14 0.09
12 6 0.04
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (9 bp):
TTTATAATT
Found at i:35163517 original size:19 final size:20
Alignment explanation
Indices: 35163472--35163519 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
35163462 TTAAATTTTA
35163472 TTTTAAAT-TTTTATTTAAT
1 TTTTAAATATTTTATTTAAT
*
35163491 TTAT-AATATTTTA-TTAAT
1 TTTTAAATATTTTATTTAAT
35163509 TTTTAAATATT
1 TTTTAAATATT
35163520 ATACAATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 11 0.44
19 14 0.56
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTTAAATATTTTATTTAAT
Found at i:35163577 original size:20 final size:20
Alignment explanation
Indices: 35163535--35163577 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
35163525 ATTATTTTTA
*
35163535 TTTTTAATAATTTACCTAAT
1 TTTTTAATAATTTACATAAT
* *
35163555 TTTTTTATAATTTATAT-AT
1 TTTTTAATAATTTACATAAT
35163574 TTTT
1 TTTT
35163578 CTTTTTAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTTTAATAATTTACATAAT
Found at i:35163599 original size:24 final size:24
Alignment explanation
Indices: 35163555--35163600 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
35163545 TTTACCTAAT
* *
35163555 TTTTTTATAATTTATATATTTTTC
1 TTTTTAATAATTTATACATTTTTC
35163579 TTTTTAATAAATTT-TACATTTT
1 TTTTTAAT-AATTTATACATTTT
35163601 AATAAATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 14 0.74
25 5 0.26
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.67
Consensus pattern (24 bp):
TTTTTAATAATTTATACATTTTTC
Found at i:35163668 original size:9 final size:9
Alignment explanation
Indices: 35163646--35163740 Score: 52
Period size: 9 Copynumber: 10.2 Consensus size: 9
35163636 CTTTTTACAC
*
35163646 TTTTTATATC
1 TTTTTA-ATA
*
35163656 TTTTTAGTA
1 TTTTTAATA
*
35163665 TTTTTAAAA
1 TTTTTAATA
35163674 TTTTTATATA
1 TTTTTA-ATA
35163684 TTTTT-ATAA
1 TTTTTAAT-A
*
35163693 TTATCT-ATA
1 TT-TTTAATA
*
35163702 TTTTTTAT-
1 TTTTTAATA
*
35163710 TATTTTAAAA
1 T-TTTTAATA
35163720 TTTTTAATGA
1 TTTTTAAT-A
*
35163730 TTTTAAATA
1 TTTTTAATA
35163739 TT
1 TT
35163741 AAATATTAGT
Statistics
Matches: 67, Mismatches: 11, Indels: 15
0.72 0.12 0.16
Matches are distributed among these distances:
8 5 0.07
9 36 0.54
10 26 0.39
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (9 bp):
TTTTTAATA
Found at i:35163668 original size:19 final size:18
Alignment explanation
Indices: 35163607--35163725 Score: 64
Period size: 18 Copynumber: 6.2 Consensus size: 18
35163597 TTTTAATAAA
*
35163607 TTTATATATTTATATATT
1 TTTATATATTTTTATATT
*
35163625 TTTATTTATAACTTTTTACACTT
1 TTTA--TAT-A-TTTTTATA-TT
*
35163648 TTTATATCTTTTTAGTATT
1 TTTATATATTTTTA-TATT
*
35163667 TTTA-AAATTTTTATATAT
1 TTTATATATTTTTATAT-T
*
35163685 TTT-TATAATTATCTATATT
1 TTTATAT-ATT-TTTATATT
* *
35163704 TTT-TATTATTTTAAAATT
1 TTTATA-TATTTTTATATT
35163722 TTTA
1 TTTA
35163726 ATGATTTTAA
Statistics
Matches: 78, Mismatches: 11, Indels: 23
0.70 0.10 0.21
Matches are distributed among these distances:
17 3 0.04
18 24 0.31
19 24 0.31
20 11 0.14
21 4 0.05
22 6 0.08
23 6 0.08
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (18 bp):
TTTATATATTTTTATATT
Found at i:35163713 original size:10 final size:9
Alignment explanation
Indices: 35163646--35163715 Score: 52
Period size: 10 Copynumber: 7.3 Consensus size: 9
35163636 CTTTTTACAC
35163646 TTTTTATAT
1 TTTTTATAT
35163655 CTTTTTAGTA-
1 -TTTTTA-TAT
* *
35163665 TTTTTAAAA
1 TTTTTATAT
35163674 TTTTTATAT
1 TTTTTATAT
35163683 ATTTTTATAAT
1 -TTTTTAT-AT
* *
35163694 TATCTATAT
1 TTTTTATAT
35163703 TTTTTATTAT
1 TTTTTA-TAT
35163713 TTT
1 TTT
35163716 AAAATTTTTA
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
8 1 0.02
9 19 0.40
10 24 0.50
11 4 0.08
ACGTcount: A:0.27, C:0.03, G:0.01, T:0.69
Consensus pattern (9 bp):
TTTTTATAT
Found at i:35163969 original size:16 final size:16
Alignment explanation
Indices: 35163945--35163978 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
35163935 GCTTTAGACT
*
35163945 TATATATATATATGTA
1 TATACATATATATGTA
35163961 TATACATATATATGTA
1 TATACATATATATGTA
35163977 TA
1 TA
35163979 AATTTTGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (16 bp):
TATACATATATATGTA
Found at i:35165093 original size:29 final size:29
Alignment explanation
Indices: 35165036--35165097 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
35165026 TCAAAAGTAG
*
35165036 ATATGAATTTTGGTTCAATACAATATTAT
1 ATATGAATTTTGATTCAATACAATATTAT
** * *
35165065 ATATGAATTTTGATTTTATATAATTTTAT
1 ATATGAATTTTGATTCAATACAATATTAT
35165094 ATAT
1 ATAT
35165098 AAAATATTGT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.37, C:0.03, G:0.08, T:0.52
Consensus pattern (29 bp):
ATATGAATTTTGATTCAATACAATATTAT
Found at i:35165110 original size:29 final size:30
Alignment explanation
Indices: 35165061--35165121 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
35165051 CAATACAATA
* *
35165061 TTATATATGAATTTTGATTTTA-TATAATT
1 TTATATATAAATATTGATTTTACTATAATT
*
35165090 TTATATATAAAATATTG-TTTTACTTTAATT
1 TTATATAT-AAATATTGATTTTACTATAATT
35165120 TT
1 TT
35165122 CACAAGTTAC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 13 0.48
30 14 0.52
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (30 bp):
TTATATATAAATATTGATTTTACTATAATT
Found at i:35182005 original size:13 final size:13
Alignment explanation
Indices: 35181989--35182018 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
35181979 ATTGTCATGT
35181989 AATTGTTTTTCTG
1 AATTGTTTTTCTG
35182002 AATTGTTTTTCTG
1 AATTGTTTTTCTG
35182015 AATT
1 AATT
35182019 TAGCTGATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.20, C:0.07, G:0.13, T:0.60
Consensus pattern (13 bp):
AATTGTTTTTCTG
Found at i:35183064 original size:157 final size:157
Alignment explanation
Indices: 35182898--35183207 Score: 539
Period size: 157 Copynumber: 2.0 Consensus size: 157
35182888 ATAAGAATAT
*
35182898 TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAAATATATTTAATAATAATTATGTTT
* *
35182963 AAATATGATGAAATTATTTATTATTCATATTAATAATCTTATCAAAATTTAAATAACAATAACAA
66 AAATATGATGAAAATATTTATTATTCATAATAATAATCTTATCAAAATTTAAATAACAATAACAA
35183028 TAATAATTTACCAAAACAAATTTCTGG
131 TAATAATTTACCAAAACAAATTTCTGG
* *
35183055 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATGTTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAAATATATTTAATAATAATTATGTTT
* * *
35183120 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATGAAAATATTTATTATTCATAATAATAATCTTATCAAAATTTAAATAACAATAACAA
*
35183185 TAATCATTTACCAAAACAAATTT
131 TAATAATTTACCAAAACAAATTT
35183208 ATGCTAAGGG
Statistics
Matches: 144, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
157 144 1.00
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAAATATATTTAATAATAATTATGTTT
AAATATGATGAAAATATTTATTATTCATAATAATAATCTTATCAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTCTGG
Found at i:35183358 original size:16 final size:16
Alignment explanation
Indices: 35183337--35183404 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
35183327 GATTTGCTAT
*
35183337 TACACCTCTAATCTAA
1 TACACCTCTAATCCAA
35183353 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
35183369 TACACTTCTAATCCAA
1 TACACCTCTAATCCAA
35183385 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
35183401 TACA
1 TACA
35183405 GCGAACCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.38, C:0.34, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:35192906 original size:27 final size:27
Alignment explanation
Indices: 35192875--35193052 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
35192865 TAAATTGTAC
35192875 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
35192902 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
35192928 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
35192956 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
35192984 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
35193011 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
35193038 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
35193053 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:35192989 original size:82 final size:81
Alignment explanation
Indices: 35192876--35193031 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
35192866 AAATTGTACA
* *
35192876 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
35192940 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
35192957 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
35193022 TGCGAGTTGA
65 TGCGAATTGA
35193032 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:35193043 original size:82 final size:81
Alignment explanation
Indices: 35192872--35193052 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
35192862 GATTAAATTG
* *
35192872 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
35192937 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
35192953 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
35193017 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
35193035 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
35193053 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:35200834 original size:27 final size:27
Alignment explanation
Indices: 35200803--35200980 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
35200793 TAAATTGTAC
35200803 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
35200830 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
35200856 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
35200884 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
35200912 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
35200939 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
35200966 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
35200981 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:35200917 original size:82 final size:81
Alignment explanation
Indices: 35200804--35200959 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
35200794 AAATTGTACA
* *
35200804 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
35200868 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
35200885 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
35200950 TGCGAGTTGA
65 TGCGAATTGA
35200960 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:35200971 original size:82 final size:81
Alignment explanation
Indices: 35200800--35200980 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
35200790 GATTAAATTG
* *
35200800 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
35200865 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
35200881 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
35200945 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
35200963 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
35200981 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:35202607 original size:17 final size:17
Alignment explanation
Indices: 35202585--35202633 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
35202575 CTTATTGAAT
35202585 CCCGATAAATGA-AAGTG
1 CCCGATAAATGATAA-TG
* *
35202602 CCCGATCAATTATAATG
1 CCCGATAAATGATAATG
*
35202619 CCCGACAAATGATAA
1 CCCGATAAATGATAA
35202634 ATGATAAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
17 24 0.92
18 2 0.08
ACGTcount: A:0.41, C:0.22, G:0.16, T:0.20
Consensus pattern (17 bp):
CCCGATAAATGATAATG
Found at i:35208911 original size:45 final size:45
Alignment explanation
Indices: 35208847--35208954 Score: 207
Period size: 45 Copynumber: 2.4 Consensus size: 45
35208837 GTGTGATGAC
*
35208847 TCCTGACATTTTCAAATGTGTTTTTATATAGTAAATGGACCCTAA
1 TCCTGACATTTTCAAATGTGTTTTTATATAGTAAATAGACCCTAA
35208892 TCCTGACATTTTCAAATGTGTTTTTATATAGTAAATAGACCCTAA
1 TCCTGACATTTTCAAATGTGTTTTTATATAGTAAATAGACCCTAA
35208937 TCCTGACATTTTCAAATG
1 TCCTGACATTTTCAAATG
35208955 CCGTCTAATT
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 62 1.00
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (45 bp):
TCCTGACATTTTCAAATGTGTTTTTATATAGTAAATAGACCCTAA
Found at i:35212844 original size:27 final size:28
Alignment explanation
Indices: 35212794--35213022 Score: 385
Period size: 27 Copynumber: 8.3 Consensus size: 28
35212784 TGCGGGTTTA
35212794 AAGTGTGCGAGTTTGACTATGTAGCACT
1 AAGTGTGCGAGTTTGACTATGTAGCACT
35212822 AAGTGTGCGAG-TTGACTATGTAGCACT
1 AAGTGTGCGAGTTTGACTATGTAGCACT
35212849 AAGTGTGCGAGTTTGACTATGTAGCACT
1 AAGTGTGCGAGTTTGACTATGTAGCACT
*
35212877 AAGTGTGCGA-ATTGACTATGTAGCACT
1 AAGTGTGCGAGTTTGACTATGTAGCACT
35212904 AAGTGTGCGAGTTTGACTATGTAGCACT
1 AAGTGTGCGAGTTTGACTATGTAGCACT
35212932 AAGTGTGCGAG-TTGACTATGTAGCACT
1 AAGTGTGCGAGTTTGACTATGTAGCACT
*
35212959 AAGTGTGCGAGTTTGATTATGTAGCACT
1 AAGTGTGCGAGTTTGACTATGTAGCACT
* *
35212987 AAGTGTGCGAG-TTGATTATATAGCACT
1 AAGTGTGCGAGTTTGACTATGTAGCACT
*
35213014 GAGTGTGCG
1 AAGTGTGCG
35213023 GACTTAATAT
Statistics
Matches: 193, Mismatches: 5, Indels: 7
0.94 0.02 0.03
Matches are distributed among these distances:
27 103 0.53
28 90 0.47
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (28 bp):
AAGTGTGCGAGTTTGACTATGTAGCACT
Found at i:35212857 original size:55 final size:55
Alignment explanation
Indices: 35212794--35213022 Score: 413
Period size: 55 Copynumber: 4.2 Consensus size: 55
35212784 TGCGGGTTTA
35212794 AAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACT
1 AAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACT
*
35212849 AAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAATTGACTATGTAGCACT
1 AAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACT
35212904 AAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACT
1 AAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACT
* * *
35212959 AAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGATTATATAGCACT
1 AAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACT
*
35213014 GAGTGTGCG
1 AAGTGTGCG
35213023 GACTTAATAT
Statistics
Matches: 168, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
55 168 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
AAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACT
Found at i:35217806 original size:12 final size:12
Alignment explanation
Indices: 35217789--35217816 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
35217779 ACCTGATGAG
35217789 CGTGCGATTGCT
1 CGTGCGATTGCT
35217801 CGTGCGATTGCT
1 CGTGCGATTGCT
35217813 CGTG
1 CGTG
35217817 TAAGGATTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.25, G:0.36, T:0.32
Consensus pattern (12 bp):
CGTGCGATTGCT
Found at i:35220167 original size:27 final size:27
Alignment explanation
Indices: 35220126--35220179 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
35220116 TATCATGTGA
* *
35220126 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
35220153 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
35220180 GGTTGTACTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:35221254 original size:34 final size:33
Alignment explanation
Indices: 35221184--35221254 Score: 79
Period size: 33 Copynumber: 2.1 Consensus size: 33
35221174 ACACAGTGTT
**
35221184 AGTACAATCTGGGCCAAAGCCCTATTCAGTAAC
1 AGTACAATCTGGGCCAAAGCCCTAAACAGTAAC
* ** *
35221217 AGTACAGTCTGGGCCTTAGCCCTTAAACAGTAGC
1 AGTACAATCTGGGCCAAAGCCC-TAAACAGTAAC
35221251 AGTA
1 AGTA
35221255 TGGGCCTAAG
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
33 19 0.61
34 12 0.39
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.23
Consensus pattern (33 bp):
AGTACAATCTGGGCCAAAGCCCTAAACAGTAAC
Done.