Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 124 of 328
Found at i:35407475 original size:40 final size:40
Alignment explanation
Indices: 35407412--35407540 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
35407402 TGCTGGAAAT
* *
35407412 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCGAGTGAC
* *
35407452 TATATCCGGGTTAAGACCCGAAGGC-ATTCGTGCGAGTTAT
1 TATATCCGGGTTAAGACCCGAAGGCAATT-GTGCGAGTGAC
* * * *
35407492 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCGA-GTGAC
35407532 TATATCCGG
1 TATATCCGG
35407541 TTATATTCCG
Statistics
Matches: 77, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
39 4 0.05
40 71 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TATATCCGGGTTAAGACCCGAAGGCAATTGTGCGAGTGAC
Found at i:35408989 original size:47 final size:48
Alignment explanation
Indices: 35408920--35409142 Score: 183
Period size: 47 Copynumber: 4.8 Consensus size: 48
35408910 GTAAGGTGCC
* * * *
35408920 GATGCCATGTCCTAGGCATGGTCTTACATTGGCTCAT-ATCTCAAGTT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAAGCT
** * *
35408967 GATGCCATGTCCCAGACATGGTCTTACACTAACT-ATCATCTCGTAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTC-AAGCT
* * * *
35409015 GATG-CTTGTCCCAGACAT-GTCTTACACTGGCAC-TCATCTTGATGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATC-TCAAGCT
* * * *** *
35409061 GATGACATGTCCCAAACATGGTCTTACACTGGCTC-TCATAATGTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCAT-CTCAAGCT
*
35409109 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTCA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCA
35409143 CAATAACCCA
Statistics
Matches: 143, Mismatches: 25, Indels: 16
0.78 0.14 0.09
Matches are distributed among these distances:
46 38 0.27
47 73 0.51
48 32 0.22
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAAGCT
Found at i:35409070 original size:94 final size:94
Alignment explanation
Indices: 35408966--35409136 Score: 254
Period size: 94 Copynumber: 1.8 Consensus size: 94
35408956 TATCTCAAGT
* * * *
35408966 TGATGCCATGTCCCAGACATGGTCTTACACTAACTATCAT-CTCGTAGCCGATGCTTGTCCCAGA
1 TGATGACATGTCCCAAACATGGTCTTACACTAACTATCATAAT-GTAGCCGATGCATGTCCCAGA
35409030 CATGTCTTACACTGGCACTCATCTTGATGC
65 CATGTCTTACACTGGCACTCATCTTGATGC
** * *
35409060 TGATGACATGTCCCAAACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAGAC
1 TGATGACATGTCCCAAACATGGTCTTACACTAACTATCATAATGTAGCCGATGCATGTCCCAGAC
35409125 ATGTCTTACACT
66 ATGTCTTACACT
35409137 AGCTCACAAT
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
94 67 0.99
95 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (94 bp):
TGATGACATGTCCCAAACATGGTCTTACACTAACTATCATAATGTAGCCGATGCATGTCCCAGAC
ATGTCTTACACTGGCACTCATCTTGATGC
Found at i:35409650 original size:19 final size:19
Alignment explanation
Indices: 35409614--35409651 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
35409604 TCCAAAATTT
35409614 CCATTATTTCACACACTTA
1 CCATTATTTCACACACTTA
*
35409633 CCATCTATTTTACA-ACTTA
1 CCAT-TATTTCACACACTTA
35409652 TGCAAAATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.32, C:0.29, G:0.00, T:0.39
Consensus pattern (19 bp):
CCATTATTTCACACACTTA
Found at i:35413260 original size:46 final size:46
Alignment explanation
Indices: 35413048--35413324 Score: 182
Period size: 49 Copynumber: 5.8 Consensus size: 46
35413038 CATTGAAGTT
* * * * * * *
35413048 GATGCCATGTCCCAGGCAAGTCTTACACTGACTTTCATATATCGAGGCT
1 GATG-CATGTCCCAGACATGTCTTACACTGGCTCTC--ATATCAATGCC
* ** *
35413097 GATGCCATGTCCCAGACAAGTCTTACACTGGCTCTCATTTATCGGTGTC
1 GATG-CATGTCCCAGACATGTCTTACACTGGCTCTCA--TATCAATGCC
* * * * * * *
35413146 GATGCCATGTCCCAAACAGGTCTTACAATAGCT-TGTATATCCTGAGGCC
1 GATG-CATGTCCCAGACATGTCTTACACTGGCTCT-CATAT-C-AATGCC
* * * *
35413195 GATGCATGTCCTAGCCATGTCTTACACTAGCTCTCATCTCAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATATCAATGCC
* * * *
35413241 GATGCATGTCCCAGACATGTGTTACACTGGCACTCATGAT--GTGGCA
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCAT-ATCAAT-GCC
*
35413287 GATGCATGTCCCAGACATGTCTTACACTGGCTCACATA
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATA
35413325 CCACCCAATG
Statistics
Matches: 185, Mismatches: 35, Indels: 20
0.77 0.15 0.08
Matches are distributed among these distances:
45 2 0.01
46 72 0.39
47 6 0.03
48 28 0.15
49 77 0.42
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATATCAATGCC
Found at i:35427934 original size:26 final size:25
Alignment explanation
Indices: 35427882--35427934 Score: 61
Period size: 26 Copynumber: 2.1 Consensus size: 25
35427872 TTAATTTAAT
* ** *
35427882 TAATTAATTTTAATTTAGTTTTTTG
1 TAATTAATTTTAAATTAGTACTATG
35427907 TAATATAATTTTAAATTAGTACTATG
1 TAAT-TAATTTTAAATTAGTACTATG
35427933 TA
1 TA
35427935 GCCTTATTAG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
25 4 0.17
26 19 0.83
ACGTcount: A:0.36, C:0.02, G:0.08, T:0.55
Consensus pattern (25 bp):
TAATTAATTTTAAATTAGTACTATG
Found at i:35430446 original size:50 final size:48
Alignment explanation
Indices: 35430335--35430460 Score: 166
Period size: 50 Copynumber: 2.6 Consensus size: 48
35430325 ATTTATGTGT
*
35430335 TAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCACATTATGAGAGC
1 TAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACATTATGACAGC
* * * *
35430381 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGATATGTGACAGC
1 TAGTGTAAGACCATGTCTGGGACATGGCATCAGC-CACAT-TATGACAGC
*
35430431 TAGTGTAAGACCATGTCTAGGACATGGCAT
1 TAGTGTAAGACCATGTCTGGGACATGGCAT
35430461 TGACTTGATG
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
46 9 0.13
47 14 0.20
48 7 0.10
49 4 0.06
50 35 0.51
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (48 bp):
TAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACATTATGACAGC
Found at i:35432124 original size:11 final size:11
Alignment explanation
Indices: 35432108--35432138 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
35432098 GTTTAGGTGA
35432108 ATTACCGGCCT
1 ATTACCGGCCT
35432119 ATTACCGGCCT
1 ATTACCGGCCT
35432130 ATTACCGGC
1 ATTACCGGC
35432139 ATTGACTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.19, C:0.35, G:0.19, T:0.26
Consensus pattern (11 bp):
ATTACCGGCCT
Found at i:35433330 original size:30 final size:29
Alignment explanation
Indices: 35433296--35433356 Score: 95
Period size: 30 Copynumber: 2.1 Consensus size: 29
35433286 CTTAACAAGT
35433296 AAATGCCTCTAAAATAATAAAAAAATTAAC
1 AAATGCCTCTAAAATAAT-AAAAAATTAAC
* *
35433326 AAATGCCTTTACAATAATAAAAAATTAAC
1 AAATGCCTCTAAAATAATAAAAAATTAAC
35433355 AA
1 AA
35433357 GAAAATAAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 13 0.45
30 16 0.55
ACGTcount: A:0.59, C:0.13, G:0.03, T:0.25
Consensus pattern (29 bp):
AAATGCCTCTAAAATAATAAAAAATTAAC
Found at i:35434147 original size:18 final size:20
Alignment explanation
Indices: 35434104--35434148 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 20
35434094 AATAATTTAT
*
35434104 ATTATATAAAAATATATATTT
1 ATTA-ATAAAAATATATATTC
35434125 A-TAATAAAAA-ATAT-TTC
1 ATTAATAAAAATATATATTC
35434142 ATTAATA
1 ATTAATA
35434149 GGAAAAAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
17 3 0.14
18 9 0.41
19 7 0.32
20 2 0.09
21 1 0.05
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (20 bp):
ATTAATAAAAATATATATTC
Found at i:35441971 original size:14 final size:14
Alignment explanation
Indices: 35441952--35441986 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
35441942 CAAAAATTGA
35441952 GTTAGTAGAACCAG
1 GTTAGTAGAACCAG
* *
35441966 GTTAGTAGAATCGG
1 GTTAGTAGAACCAG
35441980 GTTAGTA
1 GTTAGTA
35441987 AATCAAACGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (14 bp):
GTTAGTAGAACCAG
Found at i:35452782 original size:40 final size:40
Alignment explanation
Indices: 35452722--35452885 Score: 161
Period size: 40 Copynumber: 4.1 Consensus size: 40
35452712 CGGGATTTAA
* ** *
35452722 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
* *** *
35452762 CCGGATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
35452802 CCGGATATAACAACTCGCACTAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCAC-AATTGCCTTCGGGTCTTAGC
* ** * * *
35452842 CCGGACATAATC-ACTAACATAAATGCCTTCGGGACTTAGC
1 CCGGATATAA-CAACTCGCACAATTGCCTTCGGGTCTTAGC
35452882 CCGG
1 CCGG
35452886 GTATCATTCA
Statistics
Matches: 103, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
39 2 0.02
40 98 0.95
41 3 0.03
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.25
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
Found at i:35460375 original size:40 final size:40
Alignment explanation
Indices: 35460315--35460478 Score: 170
Period size: 40 Copynumber: 4.1 Consensus size: 40
35460305 CGGGATTTAA
* ** *
35460315 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
* *** *
35460355 CCGGATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
35460395 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCAC-AATTGCCTTCGGGTCTTAGC
* * * * *
35460435 CCGGACATAATC-ACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAA-CAACTCGCACAATTGCCTTCGGGTCTTAGC
35460475 CCGG
1 CCGG
35460479 GTATCATTCA
Statistics
Matches: 104, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
39 2 0.02
40 99 0.95
41 3 0.03
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
Found at i:35460462 original size:80 final size:80
Alignment explanation
Indices: 35460301--35460478 Score: 198
Period size: 80 Copynumber: 2.2 Consensus size: 80
35460291 GAGTCACGTA
* * * ** **
35460301 CCTTCGGGATTTA-ACCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGG
1 CCTTCGGGACTTAGCCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGACATAA
* *
35460365 TAACTTGCACAATTG
66 TAACTAGCACAAATG
* ** *
35460380 CCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGACATA
1 CCTTCGGGACTTAGCCCGGATATAACAACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGACATA
* *
35460444 ATCACTAGCATAAATG
65 ATAACTAGCACAAATG
35460460 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
35460479 GTATCATTCA
Statistics
Matches: 81, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
79 11 0.14
80 68 0.84
81 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGACATAA
TAACTAGCACAAATG
Found at i:35462245 original size:22 final size:22
Alignment explanation
Indices: 35462217--35462258 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
35462207 GTTAAAGAAG
*
35462217 GTTTAGCATAATCTTACATAAA
1 GTTTAGCATAATCATACATAAA
35462239 GTTTAGCATAATCATACATA
1 GTTTAGCATAATCATACATA
35462259 GTACGTGGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.14, G:0.10, T:0.36
Consensus pattern (22 bp):
GTTTAGCATAATCATACATAAA
Found at i:35463790 original size:40 final size:40
Alignment explanation
Indices: 35463735--35463936 Score: 298
Period size: 40 Copynumber: 5.0 Consensus size: 40
35463725 CGGATGATAA
* * *
35463735 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
35463775 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
35463815 CCGGGCTAAGTACCGAAGGCATTTGTGCGAGTCACTGTAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
35463855 CCGGGCTAAGTCCCGAAGGCATTGGTACGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
35463895 CCGGGCTAAGTCCCGAAGGCATTGGTACGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
35463935 CC
1 CC
35463937 AGTTAAATCC
Statistics
Matches: 150, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
39 1 0.01
40 149 0.99
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:35466818 original size:29 final size:29
Alignment explanation
Indices: 35466784--35466915 Score: 149
Period size: 29 Copynumber: 4.6 Consensus size: 29
35466774 TACTCGATTT
** * *
35466784 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* *** * *
35466813 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
35466842 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
35466871 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
35466900 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
35466916 ATCTCGTCAC
Statistics
Matches: 87, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
28 2 0.02
29 85 0.98
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:35471191 original size:21 final size:21
Alignment explanation
Indices: 35471167--35471209 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
35471157 CGAGAACTTA
35471167 AGAAGTTTCAAGAAAAATTAG
1 AGAAGTTTCAAGAAAAATTAG
35471188 AGAAGTTTCAAGAAAAATTAG
1 AGAAGTTTCAAGAAAAATTAG
35471209 A
1 A
35471210 AAATTTTCCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.53, C:0.05, G:0.19, T:0.23
Consensus pattern (21 bp):
AGAAGTTTCAAGAAAAATTAG
Found at i:35471217 original size:21 final size:21
Alignment explanation
Indices: 35471169--35471217 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
35471159 AGAACTTAAG
*
35471169 AAGTTTCAAGAAAAATTAGAG
1 AAGTTTCAAGAAAAATTAGAA
35471190 AAGTTTCAAGAAAAATTAGAA
1 AAGTTTCAAGAAAAATTAGAA
*
35471211 AATTTTC
1 AAGTTTC
35471218 CCCTGAAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.51, C:0.06, G:0.14, T:0.29
Consensus pattern (21 bp):
AAGTTTCAAGAAAAATTAGAA
Found at i:35473403 original size:46 final size:48
Alignment explanation
Indices: 35473295--35473415 Score: 167
Period size: 46 Copynumber: 2.6 Consensus size: 48
35473285 AAGCTGGCGC
* * * *
35473295 CATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCGAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGCATATATCGAGGCCGATG
*
35473343 CATGTCCCAGACATGTCTTACACTAGCTCT-CATA-AT-GTGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCT-TGCATATATCGAGGCCGATG
35473389 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
35473416 ACACATATCA
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
46 35 0.52
47 1 0.01
48 30 0.45
49 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTAGCTTGCATATATCGAGGCCGATG
Found at i:35484549 original size:38 final size:38
Alignment explanation
Indices: 35484415--35484549 Score: 119
Period size: 38 Copynumber: 3.4 Consensus size: 38
35484405 TTCCAACATG
* * *
35484415 TATTATCTTCAATTTAATTTCTCTTTAAAATAATCAAA
1 TATTATCTTCAATTTAATTTCTATTCAAAATAATAAAA
* * * *
35484453 TATAATCTTCAATTCAATTTCTGTCCAAAATAATCCCCAATAA
1 TATTATCTTCAATTTAATTTCTATTCAAAATAAT----AA-AA
* *
35484496 -ACTTTATTTTCAATTTAATTACTATTCAAAATAATAAAA
1 TA--TTATCTTCAATTTAATTTCTATTCAAAATAATAAAA
35484535 TATTATCTTCAATTT
1 TATTATCTTCAATTT
35484550 CATTCCTTTA
Statistics
Matches: 76, Mismatches: 13, Indels: 16
0.72 0.12 0.15
Matches are distributed among these distances:
38 41 0.54
39 2 0.03
40 3 0.04
42 2 0.03
43 2 0.03
44 26 0.34
ACGTcount: A:0.40, C:0.16, G:0.01, T:0.44
Consensus pattern (38 bp):
TATTATCTTCAATTTAATTTCTATTCAAAATAATAAAA
Found at i:35487738 original size:22 final size:21
Alignment explanation
Indices: 35487726--35487795 Score: 63
Period size: 21 Copynumber: 3.3 Consensus size: 21
35487716 TAAAGAAAAT
*
35487726 AGAAAATATAAATACAAATAA
1 AGAAAATAAAAATACAAATAA
* *
35487747 AGAAAATAGAAAATATAAATAT
1 AGAAAATA-AAAATACAAATAA
*
35487769 A-AATA-AAAAATACAAATATA
1 AGAAAATAAAAATACAAATA-A
*
35487789 ATAAAAT
1 AGAAAAT
35487796 TGGGTTGCCT
Statistics
Matches: 38, Mismatches: 7, Indels: 7
0.73 0.13 0.13
Matches are distributed among these distances:
19 11 0.29
20 2 0.05
21 14 0.37
22 11 0.29
ACGTcount: A:0.71, C:0.03, G:0.04, T:0.21
Consensus pattern (21 bp):
AGAAAATAAAAATACAAATAA
Found at i:35487778 original size:19 final size:19
Alignment explanation
Indices: 35487750--35487794 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
35487740 CAAATAAAGA
* *
35487750 AAATAGAAAATATAAATAT
1 AAATAAAAAATACAAATAT
35487769 AAATAAAAAATACAAATAT
1 AAATAAAAAATACAAATAT
35487788 -AATAAAA
1 AAATAAAA
35487795 TTGGGTTGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (19 bp):
AAATAAAAAATACAAATAT
Found at i:35487793 original size:28 final size:28
Alignment explanation
Indices: 35487713--35487775 Score: 117
Period size: 28 Copynumber: 2.2 Consensus size: 28
35487703 ACAAGCAAGA
35487713 AAATAAAGAAAATAGAAAATATAAATAC
1 AAATAAAGAAAATAGAAAATATAAATAC
*
35487741 AAATAAAGAAAATAGAAAATATAAATAT
1 AAATAAAGAAAATAGAAAATATAAATAC
35487769 AAATAAA
1 AAATAAA
35487776 AAATACAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.73, C:0.02, G:0.06, T:0.19
Consensus pattern (28 bp):
AAATAAAGAAAATAGAAAATATAAATAC
Found at i:35492384 original size:27 final size:29
Alignment explanation
Indices: 35492323--35492386 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 29
35492313 ATGTTTTGGT
*
35492323 GATATTTTTAATTAATTAATTAATTAGTTA
1 GATATTTTTAATTAATTAATT-ATTACTTA
*
35492353 AATATTATTTAATTAA-T-ATT-TTACTTA
1 GATATT-TTTAATTAATTAATTATTACTTA
35492380 GATATTT
1 GATATTT
35492387 ATTATTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
26 1 0.03
27 11 0.37
29 3 0.10
30 6 0.20
31 9 0.30
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.55
Consensus pattern (29 bp):
GATATTTTTAATTAATTAATTATTACTTA
Found at i:35492390 original size:23 final size:24
Alignment explanation
Indices: 35492358--35492404 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
35492348 AGTTAAATAT
35492358 TATTTAATTAATATTTTACTTAGA
1 TATTTAATTAATATTTTACTTAGA
* *
35492382 TATTT-ATTATTATTTTATTTAGA
1 TATTTAATTAATATTTTACTTAGA
35492405 AAATAGTAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (24 bp):
TATTTAATTAATATTTTACTTAGA
Found at i:35493713 original size:2 final size:2
Alignment explanation
Indices: 35493706--35493742 Score: 65
Period size: 2 Copynumber: 18.0 Consensus size: 2
35493696 GAGGAGGAGA
35493706 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AGT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT
35493743 GAATTTGAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 32 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:35495884 original size:21 final size:20
Alignment explanation
Indices: 35495846--35495890 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
35495836 TAAAAACTAC
**
35495846 AAAAATTTATAATTTTTACA
1 AAAAATTTATAAAATTTACA
*
35495866 AAAAATTATATAAAATTTATA
1 AAAAATT-TATAAAATTTACA
35495887 AAAA
1 AAAA
35495891 TATAATAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (20 bp):
AAAAATTTATAAAATTTACA
Found at i:35499789 original size:40 final size:40
Alignment explanation
Indices: 35499687--35499870 Score: 174
Period size: 40 Copynumber: 4.6 Consensus size: 40
35499677 AAATTGAATG
* * * * *
35499687 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TAGTT
* *
35499727 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
35499767 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
35499807 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
35499847 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
35499871 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 3 0.02
40 115 0.95
41 3 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:35507371 original size:39 final size:40
Alignment explanation
Indices: 35507313--35507413 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 40
35507303 AAATTGAATG
* *
35507313 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * * *
35507352 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
35507392 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
35507414 GCATTCGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 29 0.55
40 24 0.45
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:35507406 original size:40 final size:40
Alignment explanation
Indices: 35507313--35507495 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
35507303 AAATTGAATG
* * * * *
35507313 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
35507352 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
35507392 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
35507432 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
35507472 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
35507496 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
39 32 0.26
40 87 0.72
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:35510721 original size:22 final size:23
Alignment explanation
Indices: 35510680--35510732 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 23
35510670 AAATTTAAAA
* *
35510680 AAATTAA-TTTTTGAGTTAA-TT
1 AAATTAATTTTTTCAGGTAATTT
*
35510701 GAATTAATTTTTTCAGGTAATTT
1 AAATTAATTTTTTCAGGTAATTT
35510724 AAATTAATT
1 AAATTAATT
35510733 GGAATAAGTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 6 0.23
22 10 0.38
23 10 0.38
ACGTcount: A:0.38, C:0.02, G:0.09, T:0.51
Consensus pattern (23 bp):
AAATTAATTTTTTCAGGTAATTT
Found at i:35510808 original size:9 final size:9
Alignment explanation
Indices: 35510779--35510808 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
35510769 TGAATTTTAC
35510779 AATTCGAAT
1 AATTCGAAT
*
35510788 AACTCGAAT
1 AATTCGAAT
35510797 AATTCGAAT
1 AATTCGAAT
35510806 AAT
1 AAT
35510809 GGATTGATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.47, C:0.13, G:0.10, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:35510911 original size:20 final size:21
Alignment explanation
Indices: 35510888--35510940 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 21
35510878 AAAAATTATA
*
35510888 AAAAGTTCAAATTAA-TTTTC
1 AAAAGTTCAAAATAATTTTTC
* *
35510908 AAAATTTTAAAATAATTTTTC
1 AAAAGTTCAAAATAATTTTTC
35510929 -AAA-TTCAAAATA
1 AAAAGTTCAAAATA
35510941 TTTATAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 8 0.29
20 15 0.54
21 5 0.18
ACGTcount: A:0.51, C:0.08, G:0.02, T:0.40
Consensus pattern (21 bp):
AAAAGTTCAAAATAATTTTTC
Found at i:35511127 original size:16 final size:16
Alignment explanation
Indices: 35511106--35511136 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
35511096 TTTGAAAAAT
35511106 TTTCAAATATATATGA
1 TTTCAAATATATATGA
*
35511122 TTTCAAATTTATATG
1 TTTCAAATATATATG
35511137 CTCTAACATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.48
Consensus pattern (16 bp):
TTTCAAATATATATGA
Found at i:35520590 original size:40 final size:40
Alignment explanation
Indices: 35520545--35520621 Score: 136
Period size: 40 Copynumber: 1.9 Consensus size: 40
35520535 GTGATTTAGT
35520545 TGAGGAATAATATTGCTGATCAGGCTTGGCTAAGTGGAAC
1 TGAGGAATAATATTGCTGATCAGGCTTGGCTAAGTGGAAC
* *
35520585 TGAGGAATAATCTTGCTGATCAGGCTTGGCTAGGTGG
1 TGAGGAATAATATTGCTGATCAGGCTTGGCTAAGTGG
35520622 CTAAGTAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.26, C:0.13, G:0.32, T:0.29
Consensus pattern (40 bp):
TGAGGAATAATATTGCTGATCAGGCTTGGCTAAGTGGAAC
Found at i:35523434 original size:17 final size:18
Alignment explanation
Indices: 35523403--35523437 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
35523393 CACAACTCAG
35523403 TAAATATTCAATAACAAA
1 TAAATATTCAATAACAAA
*
35523421 TAAA-ATTCATTAACAAA
1 TAAATATTCAATAACAAA
35523438 CACAATGTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.60, C:0.11, G:0.00, T:0.29
Consensus pattern (18 bp):
TAAATATTCAATAACAAA
Found at i:35523662 original size:42 final size:42
Alignment explanation
Indices: 35523575--35523667 Score: 109
Period size: 42 Copynumber: 2.2 Consensus size: 42
35523565 CGTGTGAGCT
* * *
35523575 GGTCATGTGCCTCACATAGCCACCGACACGCCCATGTAAATA
1 GGTCGTGTGCCTCACATAGCCACCGACACACCCATGTAAACA
* *
35523617 GGTCGTGTGCCTCACACT-GCCACCAGACACACCCGTGT-CACA
1 GGTCGTGTGCCTCACA-TAGCCACC-GACACACCCATGTAAACA
35523659 GGTCGTGTG
1 GGTCGTGTG
35523668 AAAATAGGGC
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
42 32 0.73
43 12 0.27
ACGTcount: A:0.23, C:0.34, G:0.24, T:0.19
Consensus pattern (42 bp):
GGTCGTGTGCCTCACATAGCCACCGACACACCCATGTAAACA
Found at i:35524926 original size:41 final size:41
Alignment explanation
Indices: 35524839--35525020 Score: 169
Period size: 41 Copynumber: 4.5 Consensus size: 41
35524829 ATACTCAGAT
* * *
35524839 TCTCGCACACTAAGTGCCAAAGCATAGCTGAAGCTATTACAA
1 TCTCGCACACTAAGTGCCATATCATAGCCGAAGCTATT-CAA
* *
35524881 TCTCGCACACTAAGTGCC-TTTCATAGCCGAAGCTATCTCAG
1 TCTCGCACACTAAGTGCCATATCATAGCCGAAGCTAT-TCAA
* *
35524922 TCTCGCACACTAAGTGCCATAT-ATGGTCGAAGCTATTCCGAA
1 TCTCGCACACTAAGTGCCATATCATAGCCGAAGCTATT-C-AA
* ** *
35524964 --TCACACACTAAGTGCTTTAT-ATAGCCAAAGCTATCTCAA
1 TCTCGCACACTAAGTGCCATATCATAGCCGAAGCTAT-TCAA
*
35525003 T-ACGCACACTAAGTGCCA
1 TCTCGCACACTAAGTGCCA
35525021 AACTTAATCA
Statistics
Matches: 115, Mismatches: 19, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
39 2 0.02
40 43 0.37
41 48 0.42
42 22 0.19
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (41 bp):
TCTCGCACACTAAGTGCCATATCATAGCCGAAGCTATTCAA
Found at i:35524995 original size:40 final size:40
Alignment explanation
Indices: 35524883--35525018 Score: 125
Period size: 40 Copynumber: 3.4 Consensus size: 40
35524873 TATTACAATC
* * **
35524883 TCGCACACTAAGTGCCTTT-CATAGCCGAAGCTATCTCAGTC
1 TCGCACACTAAGTG-CTTTATATAGCCGAAGCTAT-TCCGAA
** * *
35524924 TCGCACACTAAGTGCCATATATGGTCGAAGCTATTCCGAA
1 TCGCACACTAAGTGCTTTATATAGCCGAAGCTATTCCGAA
* *
35524964 TCACACACTAAGTGCTTTATATAGCCAAAGCTA-TCTC-AA
1 TCGCACACTAAGTGCTTTATATAGCCGAAGCTATTC-CGAA
35525003 TACGCACACTAAGTGC
1 T-CGCACACTAAGTGC
35525019 CAAACTTAAT
Statistics
Matches: 77, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
39 5 0.06
40 46 0.60
41 26 0.34
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (40 bp):
TCGCACACTAAGTGCTTTATATAGCCGAAGCTATTCCGAA
Found at i:35544699 original size:40 final size:39
Alignment explanation
Indices: 35544534--35544717 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
35544524 AAATTGAATG
* * *
35544534 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
35544574 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
35544614 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
35544654 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
35544693 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
35544718 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:35544742 original size:80 final size:81
Alignment explanation
Indices: 35544574--35544762 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
35544564 GCTGGAAATT
* * * *
35544574 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
35544639 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
35544655 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
35544718 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
35544734 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
35544763 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:35566872 original size:29 final size:30
Alignment explanation
Indices: 35566788--35566882 Score: 93
Period size: 31 Copynumber: 3.1 Consensus size: 30
35566778 AATGTGCATG
* *
35566788 ATTAAATCAAAATTAAAGTTTCAAGTGTACA
1 ATTAAA-CCAAATTAAAGTTTCATGTGTACA
* * *
35566819 TTTAAACCACAATTAGAGTTTCATGCGTACA
1 ATTAAACCA-AATTAAAGTTTCATGTGTACA
** *
35566850 ATTGCACCAAATTAAAG-TTCATGTATACA
1 ATTAAACCAAATTAAAGTTTCATGTGTACA
35566879 ATTA
1 ATTA
35566883 CACATTAAAT
Statistics
Matches: 51, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
29 13 0.25
30 9 0.18
31 29 0.57
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.33
Consensus pattern (30 bp):
ATTAAACCAAATTAAAGTTTCATGTGTACA
Found at i:35568633 original size:39 final size:39
Alignment explanation
Indices: 35568470--35568729 Score: 304
Period size: 40 Copynumber: 6.6 Consensus size: 39
35568460 AAATAAAGAA
* *
35568470 GTGCCCTTGTTTGTACTTCGGTACCGCTGAATGCACATTT
1 GTGCCCCTGTTTGTACTTCGGTACC-CTAAATGCACATTT
* * *
35568510 GTGCCACTGTTTGTACTTCGGTACCCCTGAGTGCACATTT
1 GTGCCCCTGTTTGTACTTCGGTA-CCCTAAATGCACATTT
* * *
35568550 GTGCCCCTATTTGTACTTCGATACCCTTGAATGCACATTT
1 GTGCCCCTGTTTGTACTTCGGTACCC-TAAATGCACATTT
* * *
35568590 GTGCCCATGTTTGTGCTTCGGTACCCTAAATGCACATCT
1 GTGCCCCTGTTTGTACTTCGGTACCCTAAATGCACATTT
*
35568629 GTGCCCCTGTTTTTACTTCGGTACCCTAAATGCACATTT
1 GTGCCCCTGTTTGTACTTCGGTACCCTAAATGCACATTT
* * * *
35568668 TTGCCCCTGTTTGTACTTTGATGCCCTTAAATGCACATTT
1 GTGCCCCTGTTTGTACTTCGGTACCC-TAAATGCACATTT
* ** *
35568708 ATGCCCCTAATTGCACTTCGGT
1 GTGCCCCTGTTTGTACTTCGGT
35568730 GCCCCTGATC
Statistics
Matches: 189, Mismatches: 28, Indels: 6
0.85 0.13 0.03
Matches are distributed among these distances:
39 70 0.37
40 117 0.62
41 2 0.01
ACGTcount: A:0.17, C:0.27, G:0.18, T:0.37
Consensus pattern (39 bp):
GTGCCCCTGTTTGTACTTCGGTACCCTAAATGCACATTT
Found at i:35568726 original size:79 final size:78
Alignment explanation
Indices: 35568470--35568746 Score: 313
Period size: 79 Copynumber: 3.5 Consensus size: 78
35568460 AAATAAAGAA
* * *
35568470 GTGCCCTTGTTTGTACTTCGGTACCGCTGAATGCACATTTGTGCCACTGTTTGTACTTCGGTACC
1 GTGCCCCTATTTGTACTTCGGTACC-CTGAATGCACATTTGTGCCCCTGTTTGTACTTCGGTA-C
* *
35568535 CCTGAGTGCACATTT
64 CCTAAATGCACATTT
* * *
35568550 GTGCCCCTATTTGTACTTCGATACCCTTGAATGCACATTTGTGCCCATGTTTGTGCTTCGGTACC
1 GTGCCCCTATTTGTACTTCGGTACCC-TGAATGCACATTTGTGCCCCTGTTTGTACTTCGGTACC
*
35568615 CTAAATGCACATCT
65 CTAAATGCACATTT
* * * * * * *
35568629 GTGCCCCTGTTTTTACTTCGGTACCCTAAATGCACATTTTTGCCCCTGTTTGTACTTTGATGCCC
1 GTGCCCCTATTTGTACTTCGGTACCCTGAATGCACATTTGTGCCCCTGTTTGTACTTCGGTACCC
35568694 TTAAATGCACATTT
66 -TAAATGCACATTT
* * * *
35568708 ATGCCCCTAATTGCACTTCGGTGCCCCTG-ATCGCACATT
1 GTGCCCCTATTTGTACTTCGGT-ACCCTGAAT-GCACATT
35568747 CATGCTTCTG
Statistics
Matches: 166, Mismatches: 27, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
78 32 0.19
79 68 0.41
80 66 0.40
ACGTcount: A:0.17, C:0.28, G:0.18, T:0.36
Consensus pattern (78 bp):
GTGCCCCTATTTGTACTTCGGTACCCTGAATGCACATTTGTGCCCCTGTTTGTACTTCGGTACCC
TAAATGCACATTT
Found at i:35569306 original size:20 final size:20
Alignment explanation
Indices: 35569281--35569352 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
35569271 AGAAACATTT
35569281 GTGCCCTTGATTACACTTCG
1 GTGCCCTTGATTACACTTCG
* *
35569301 GTGCCCCTGATCACACATTC-
1 GTGCCCTTGATTACAC-TTCG
* * *
35569321 GTGCTCTTGATTGCACTTTG
1 GTGCCCTTGATTACACTTCG
35569341 GTGCCCTT-ATTA
1 GTGCCCTTGATTA
35569353 TGCATCTATG
Statistics
Matches: 41, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
19 5 0.12
20 33 0.80
21 3 0.07
ACGTcount: A:0.15, C:0.29, G:0.19, T:0.36
Consensus pattern (20 bp):
GTGCCCTTGATTACACTTCG
Found at i:35573048 original size:40 final size:40
Alignment explanation
Indices: 35572973--35573233 Score: 413
Period size: 40 Copynumber: 6.6 Consensus size: 40
35572963 AACCCAAGTA
*
35572973 CCTTCGGGATTTAG-CCGGATATAG-CAACTCA-CACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-T-AGCACAAATG
*
35573012 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
35573052 CCTTCGGGATTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
35573092 CCTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATT
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
35573132 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
35573172 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
35573212 CCTTC-GGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
35573234 CATTCGAATA
Statistics
Matches: 207, Mismatches: 12, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
39 30 0.14
40 174 0.84
41 3 0.01
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:35575144 original size:29 final size:29
Alignment explanation
Indices: 35575112--35575169 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
35575102 GAAATACGAA
35575112 AAAAATTATTTTAAAAATTTTTATATACT
1 AAAAATTATTTTAAAAATTTTTATATACT
* *
35575141 AAAAATTATTTTGAAATTTTTTATATACT
1 AAAAATTATTTTAAAAATTTTTATATACT
35575170 TTCAAAGGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (29 bp):
AAAAATTATTTTAAAAATTTTTATATACT
Found at i:35581683 original size:25 final size:25
Alignment explanation
Indices: 35581608--35581683 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
35581598 GTGTATATAT
35581608 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
35581633 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
35581655 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
35581680 GTGA
1 GTGA
35581684 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:35581821 original size:47 final size:47
Alignment explanation
Indices: 35581581--35581813 Score: 369
Period size: 47 Copynumber: 5.0 Consensus size: 47
35581571 TTAGGATTTT
** *
35581581 ATGTGATGAATGTGAATGTGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
35581628 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
35581675 ATGTGGTGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC-A
35581723 A-GTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
35581769 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGC
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
35581814 TAGTGTGAAG
Statistics
Matches: 171, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
46 2 0.01
47 167 0.98
48 2 0.01
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:35582026 original size:37 final size:37
Alignment explanation
Indices: 35581976--35582062 Score: 147
Period size: 37 Copynumber: 2.4 Consensus size: 37
35581966 GGAAATATAT
* *
35581976 TCCGGGTGAGACTCGATGACTACGTATGGAGATTATG
1 TCCGGGTAAGACTCGATGACTACGTATGGAGAGTATG
*
35582013 TCCGGGTAAGACTCGATGACTACGTGTGGAGAGTATG
1 TCCGGGTAAGACTCGATGACTACGTATGGAGAGTATG
35582050 TCCGGGTAAGACT
1 TCCGGGTAAGACT
35582063 GTAACACCCC
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.24, C:0.17, G:0.33, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACTCGATGACTACGTATGGAGAGTATG
Found at i:35583401 original size:66 final size:68
Alignment explanation
Indices: 35583323--35583509 Score: 272
Period size: 71 Copynumber: 2.7 Consensus size: 68
35583313 TAGTACCACT
*
35583323 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAAT
35583385 CACG
65 CACG
*
35583389 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGA
35583454 ATCACG
63 ATCACG
35583460 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
35583510 GATACATCTC
Statistics
Matches: 113, Mismatches: 2, Indels: 7
0.93 0.02 0.06
Matches are distributed among these distances:
66 13 0.12
67 6 0.05
68 1 0.01
69 1 0.01
71 92 0.81
ACGTcount: A:0.19, C:0.28, G:0.19, T:0.34
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATC
ACG
Found at i:35583434 original size:71 final size:71
Alignment explanation
Indices: 35583346--35583509 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
35583336 CGATTTGTCT
35583346 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
35583411 CTTTCA
66 CTTTCA
*
35583417 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
35583482 CTTTCA
66 CTTTCA
35583488 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
35583510 GATACATCTC
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 92 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:35583547 original size:71 final size:70
Alignment explanation
Indices: 35583346--35583543 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
35583336 CGATTTGTCT
* * * *
35583346 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
35583411 CTTTCA
65 CTTTCA
* * * *
35583417 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
35583482 CTTTCA
65 CTTTCA
* *
35583488 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
35583544 TACAGGGTGT
Statistics
Matches: 119, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 95 0.80
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.33
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:35590980 original size:71 final size:71
Alignment explanation
Indices: 35590896--35591059 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
35590886 CGATTTGTCT
35590896 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
35590961 CTTTCA
66 CTTTCA
* *
35590967 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
35591032 CTTTCA
66 CTTTCA
35591038 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
35591060 GATACTCTCG
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.19, C:0.29, G:0.18, T:0.34
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
CTTTCA
Found at i:35592390 original size:37 final size:37
Alignment explanation
Indices: 35592349--35592419 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 37
35592339 GGTTGTCACA
* *
35592349 AAGACCCGATGACTACGTATGGAGATTTTGTCTGGGT
1 AAGACCCGATAACTACGTATGGAGATTTCGTCTGGGT
* *
35592386 AAGACCCGATAACTTCGTGTGGAGATTTCGTCTG
1 AAGACCCGATAACTACGTATGGAGATTTCGTCTG
35592420 AGCTAAAGGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (37 bp):
AAGACCCGATAACTACGTATGGAGATTTCGTCTGGGT
Found at i:35600486 original size:21 final size:21
Alignment explanation
Indices: 35600462--35600528 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
35600452 TAGCTATCAT
35600462 ATTTTGGTAAGTTCGTATTAC
1 ATTTTGGTAAGTTCGTATTAC
* ** * *
35600483 A-TTTGTTACA-TTATTTATCAT
1 ATTTTGGTA-AGTT-CGTATTAC
35600504 ATTTTGGTAAGTTCGTATTAC
1 ATTTTGGTAAGTTCGTATTAC
35600525 ATTT
1 ATTT
35600529 GTTACATTAT
Statistics
Matches: 32, Mismatches: 10, Indels: 8
0.64 0.20 0.16
Matches are distributed among these distances:
20 8 0.25
21 16 0.50
22 8 0.25
ACGTcount: A:0.25, C:0.09, G:0.13, T:0.52
Consensus pattern (21 bp):
ATTTTGGTAAGTTCGTATTAC
Found at i:35600503 original size:42 final size:42
Alignment explanation
Indices: 35600456--35600542 Score: 174
Period size: 42 Copynumber: 2.1 Consensus size: 42
35600446 TGTTGTTAGC
35600456 TATCATATTTTGGTAAGTTCGTATTACATTTGTTACATTATT
1 TATCATATTTTGGTAAGTTCGTATTACATTTGTTACATTATT
35600498 TATCATATTTTGGTAAGTTCGTATTACATTTGTTACATTATT
1 TATCATATTTTGGTAAGTTCGTATTACATTTGTTACATTATT
35600540 TAT
1 TAT
35600543 GTTTAACTTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.26, C:0.09, G:0.11, T:0.53
Consensus pattern (42 bp):
TATCATATTTTGGTAAGTTCGTATTACATTTGTTACATTATT
Found at i:35601963 original size:30 final size:30
Alignment explanation
Indices: 35601929--35601985 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
35601919 GCCATATGGT
*
35601929 CGTGTGCCCCACACGGTCATGTGACACAGC
1 CGTGTGCCCCACACAGTCATGTGACACAGC
35601959 CGTGTGCCCCACACAGTCATGTGACAC
1 CGTGTGCCCCACACAGTCATGTGACAC
35601986 GACCGTATGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.21, C:0.37, G:0.25, T:0.18
Consensus pattern (30 bp):
CGTGTGCCCCACACAGTCATGTGACACAGC
Found at i:35605507 original size:2 final size:2
Alignment explanation
Indices: 35605500--35605532 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
35605490 TGAAATTAGA
35605500 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
35605533 TTTGAAAGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:35606964 original size:43 final size:46
Alignment explanation
Indices: 35606910--35607027 Score: 163
Period size: 45 Copynumber: 2.7 Consensus size: 46
35606900 CAGGCTTCGG
* *
35606910 GCCTAGCAGGCTATAATGCCAGTGAAATGA-TA-TCG-GGCTTTGA
1 GCCTAGCAGGCTATAATGCCGGTGAAATGATTATTCGAGCCTTTGA
* * *
35606953 GCTTAGTAGGCTATGATGCCGGTGAAAT-ATTATTCGAGCCTTTGA
1 GCCTAGCAGGCTATAATGCCGGTGAAATGATTATTCGAGCCTTTGA
35606998 GCCTAGCAGGCTATAATGCCGGTGAAATGA
1 GCCTAGCAGGCTATAATGCCGGTGAAATGA
35607028 AATGTTATGT
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
42 1 0.02
43 26 0.41
44 3 0.05
45 32 0.51
46 1 0.02
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (46 bp):
GCCTAGCAGGCTATAATGCCGGTGAAATGATTATTCGAGCCTTTGA
Found at i:35607358 original size:38 final size:38
Alignment explanation
Indices: 35607324--35607494 Score: 220
Period size: 38 Copynumber: 4.5 Consensus size: 38
35607314 GTAGGCTATA
**
35607324 TGCTGGAATTATATCCAAGTTAAATCCCGCAGGCTTCG
1 TGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTCG
*
35607362 TGCTAGTAA-TATATCCGGGTTAAATCCCGCAGGCTTCG
1 TGCT-GGAATTATATCCGGGTTAAATCCCGCAGGCTTCG
*
35607400 TGCTGGTAA-TATATCCGGGTTAATTCCCGCAGGCTTCG
1 TGCTGG-AATTATATCCGGGTTAAATCCCGCAGGCTTCG
* * * *
35607438 TGCTAGTATTATATCCGGGTTAAATCCCGCAGGCCTAG
1 TGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTCG
* *
35607476 TGCTGGTATTATATTCGGG
1 TGCTGGAATTATATCCGGG
35607495 CCTTTGAGCC
Statistics
Matches: 118, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
37 2 0.02
38 113 0.96
39 3 0.03
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (38 bp):
TGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTCG
Found at i:35607428 original size:76 final size:76
Alignment explanation
Indices: 35607324--35607494 Score: 254
Period size: 76 Copynumber: 2.2 Consensus size: 76
35607314 GTAGGCTATA
**
35607324 TGCTGG-AATTATATCCAAGTTAAATCCCGCAGGCTTCGTGCTAGTAATATATCCGGGTTAAATC
1 TGCTGGTAA-TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTAGTAATATATCCGGGTTAAATC
* *
35607388 CCGCAGGCTTCG
65 CCGCAGGCCTAG
* *
35607400 TGCTGGTAATATATCCGGGTTAATTCCCGCAGGCTTCGTGCTAGTATTATATCCGGGTTAAATCC
1 TGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTAGTAATATATCCGGGTTAAATCC
35607465 CGCAGGCCTAG
66 CGCAGGCCTAG
* *
35607476 TGCTGGTATTATATTCGGG
1 TGCTGGTAATATATCCGGG
35607495 CCTTTGAGCC
Statistics
Matches: 86, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
76 84 0.98
77 2 0.02
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (76 bp):
TGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTAGTAATATATCCGGGTTAAATCC
CGCAGGCCTAG
Found at i:35607537 original size:45 final size:45
Alignment explanation
Indices: 35607487--35607659 Score: 201
Period size: 45 Copynumber: 3.9 Consensus size: 45
35607477 GCTGGTATTA
*
35607487 TATTCGGGCCTTTGAGCCTAGCAGGCTATTATGCCGGTGAGACAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGACAC
* * *
35607532 TATTCGGGCCTTTGGGCCTAGCAAGCTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGACAC
* * *
35607577 TATTCGGG-CTTTCGAGCCTAGCAGGCTATAATGCCGATGAAATGA-
1 TATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGCCGGTGAGA-CAC
* * * *
35607622 TAATCGGGCC-TCGATCCTAGCAGGCGA-AATGCCGGTGA
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
35607660 TTTGAGAAAA
Statistics
Matches: 111, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
43 10 0.09
44 17 0.15
45 82 0.74
46 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (45 bp):
TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGACAC
Found at i:35619419 original size:56 final size:57
Alignment explanation
Indices: 35619352--35619467 Score: 207
Period size: 56 Copynumber: 2.1 Consensus size: 57
35619342 AAATTGTAAT
* *
35619352 TTACCATAATAATAGTGAATATAATTTCTACTTATGATGTTTACAACTTATTTTA-A
1 TTACCATAATAATAGTGAATATAATTTCTAATTATGATGTTTACAACTCATTTTATA
35619408 TTACCATAATAATAGTGAATATAATTTCTAATTATGATGTTTACAACTCATTTTATA
1 TTACCATAATAATAGTGAATATAATTTCTAATTATGATGTTTACAACTCATTTTATA
35619465 TTA
1 TTA
35619468 AACCTTATTT
Statistics
Matches: 57, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
56 53 0.93
57 4 0.07
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.45
Consensus pattern (57 bp):
TTACCATAATAATAGTGAATATAATTTCTAATTATGATGTTTACAACTCATTTTATA
Found at i:35619877 original size:20 final size:21
Alignment explanation
Indices: 35619823--35619878 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 21
35619813 TTTAACCTTA
* * *
35619823 TATTTCTATTTAATTTTTTTC
1 TATTTCTATTTTATATCTTTC
*
35619844 TATTT-TACTTTATATCTTT-
1 TATTTCTATTTTATATCTTTC
35619863 TATTTCTATTTTATAT
1 TATTTCTATTTTATAT
35619879 AATTTATTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 5 0.17
20 19 0.66
21 5 0.17
ACGTcount: A:0.21, C:0.09, G:0.00, T:0.70
Consensus pattern (21 bp):
TATTTCTATTTTATATCTTTC
Found at i:35619888 original size:25 final size:24
Alignment explanation
Indices: 35619830--35619889 Score: 59
Period size: 25 Copynumber: 2.4 Consensus size: 24
35619820 TTATATTTCT
*
35619830 ATTTAATTTTTTTCTATTTTACTTT
1 ATTT-ATTTTTTTCTATTTTACTTA
* *
35619855 ATATCTTTTATTTCTATTTTA-TATA
1 ATTTATTTT-TTTCTATTTTACT-TA
35619880 ATTTATTTTT
1 ATTTATTTTT
35619890 ACATAATTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
24 6 0.21
25 22 0.79
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (24 bp):
ATTTATTTTTTTCTATTTTACTTA
Found at i:35619895 original size:15 final size:15
Alignment explanation
Indices: 35619871--35619901 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
35619861 TTTATTTCTA
*
35619871 TTTTATATAATTTAT
1 TTTTACATAATTTAT
35619886 TTTTACATAATTTAT
1 TTTTACATAATTTAT
35619901 T
1 T
35619902 CTCAATTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (15 bp):
TTTTACATAATTTAT
Found at i:35620922 original size:27 final size:27
Alignment explanation
Indices: 35620892--35620946 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
35620882 TGGGTGAGAT
35620892 TGAATTCAGAAAGATTCAAGGAAGGCA
1 TGAATTCAGAAAGATTCAAGGAAGGCA
35620919 TGAATTCAGAAAGATTCAAGGAAGGCA
1 TGAATTCAGAAAGATTCAAGGAAGGCA
35620946 T
1 T
35620947 TTCCTGATCG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.44, C:0.11, G:0.25, T:0.20
Consensus pattern (27 bp):
TGAATTCAGAAAGATTCAAGGAAGGCA
Found at i:35625520 original size:29 final size:27
Alignment explanation
Indices: 35625486--35625588 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
35625476 TACTCAATCA
*
35625486 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
35625515 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
35625544 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
35625573 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
35625589 ATCTCGTCCC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:35635234 original size:30 final size:30
Alignment explanation
Indices: 35635198--35635257 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
35635188 AATTGATACA
35635198 TAGCCTCATCGATCCATCTTTCTTCTTTAC
1 TAGCCTCATCGATCCATCTTTCTTCTTTAC
35635228 TAGCCTCATCGATCCATCTTTCTTCTTTAC
1 TAGCCTCATCGATCCATCTTTCTTCTTTAC
35635258 AAAAAATACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.17, C:0.33, G:0.07, T:0.43
Consensus pattern (30 bp):
TAGCCTCATCGATCCATCTTTCTTCTTTAC
Found at i:35649874 original size:40 final size:40
Alignment explanation
Indices: 35649829--35649958 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
35649819 CGGAATACAA
35649829 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
35649869 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
35649909 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
35649949 CCGGATATAA
1 CCGGATATAA
35649959 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:35649973 original size:40 final size:40
Alignment explanation
Indices: 35649829--35649992 Score: 145
Period size: 40 Copynumber: 4.1 Consensus size: 40
35649819 CGGAATACAA
* **
35649829 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* *
35649869 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
35649909 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * * *
35649949 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
35649989 CCGG
1 CCGG
35649993 GTATCATTCA
Statistics
Matches: 100, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
39 2 0.02
40 98 0.98
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:35657921 original size:40 final size:40
Alignment explanation
Indices: 35657876--35658005 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
35657866 CGGAATACAA
35657876 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
35657916 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
35657956 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
35657996 CCGGATATAA
1 CCGGATATAA
35658006 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:35658020 original size:40 final size:40
Alignment explanation
Indices: 35657876--35658038 Score: 145
Period size: 40 Copynumber: 4.1 Consensus size: 40
35657866 CGGAATACAA
* **
35657876 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* *
35657916 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
35657956 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * *
35657996 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
35658035 CCGG
1 CCGG
35658039 TATCATTCAA
Statistics
Matches: 100, Mismatches: 20, Indels: 7
0.79 0.16 0.06
Matches are distributed among these distances:
39 11 0.11
40 89 0.89
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:35665755 original size:40 final size:40
Alignment explanation
Indices: 35665710--35665839 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
35665700 CGGAATACAA
35665710 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
35665750 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
35665790 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
35665830 CCGGATATAA
1 CCGGATATAA
35665840 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:35665854 original size:40 final size:40
Alignment explanation
Indices: 35665710--35665876 Score: 153
Period size: 40 Copynumber: 4.2 Consensus size: 40
35665700 CGGAATACAA
* **
35665710 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* *
35665750 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
35665790 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * *
35665830 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
35665869 CCGGATAT
1 CCGGATAT
35665877 CATTCAATTT
Statistics
Matches: 104, Mismatches: 20, Indels: 7
0.79 0.15 0.05
Matches are distributed among these distances:
39 15 0.14
40 89 0.86
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:35673782 original size:40 final size:40
Alignment explanation
Indices: 35673737--35673866 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
35673727 CGGAATACAA
35673737 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
35673777 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
35673817 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
35673857 CCGGATATAA
1 CCGGATATAA
35673867 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:35673881 original size:40 final size:40
Alignment explanation
Indices: 35673737--35673900 Score: 145
Period size: 40 Copynumber: 4.1 Consensus size: 40
35673727 CGGAATACAA
* **
35673737 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* *
35673777 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
35673817 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * * *
35673857 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
35673897 CCGG
1 CCGG
35673901 TATCATTCAA
Statistics
Matches: 100, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
39 2 0.02
40 98 0.98
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:35699333 original size:11 final size:11
Alignment explanation
Indices: 35699299--35699326 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
35699289 AGCAAGAGTC
35699299 AAAAGGAGCAA
1 AAAAGGAGCAA
35699310 AAAAGGAGCAA
1 AAAAGGAGCAA
35699321 AAAAGG
1 AAAAGG
35699327 GACAAAATGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.64, C:0.07, G:0.29, T:0.00
Consensus pattern (11 bp):
AAAAGGAGCAA
Found at i:35705663 original size:13 final size:13
Alignment explanation
Indices: 35705638--35705704 Score: 75
Period size: 13 Copynumber: 5.2 Consensus size: 13
35705628 TCCTCCTAAC
35705638 TTTTTATTCTTATT
1 TTTTTATT-TTATT
35705652 TTTTTATTTTATT
1 TTTTTATTTTATT
35705665 TTTATT-TTTTATT
1 TTT-TTATTTTATT
**
35705678 TTCAT-TTTTATT
1 TTTTTATTTTATT
*
35705690 TTATTATTTTATT
1 TTTTTATTTTATT
35705703 TT
1 TT
35705705 GAAAGACATA
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
12 11 0.23
13 26 0.55
14 10 0.21
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTTTATTTTATT
Found at i:35705663 original size:19 final size:19
Alignment explanation
Indices: 35705639--35705704 Score: 98
Period size: 19 Copynumber: 3.5 Consensus size: 19
35705629 CCTCCTAACT
*
35705639 TTTTATTCTTATTTTTTTA
1 TTTTATTTTTATTTTTTTA
35705658 TTTTATTTTTA-TTTTTTA
1 TTTTATTTTTATTTTTTTA
*
35705676 TTTTCATTTTTATTTTATTA
1 TTTT-ATTTTTATTTTTTTA
35705696 TTTTATTTT
1 TTTTATTTT
35705705 GAAAGACATA
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
18 11 0.26
19 22 0.51
20 10 0.23
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (19 bp):
TTTTATTTTTATTTTTTTA
Found at i:35709792 original size:48 final size:46
Alignment explanation
Indices: 35709652--35709817 Score: 156
Period size: 48 Copynumber: 3.5 Consensus size: 46
35709642 TTGTCGATGC
* * * **
35709652 CATGTCCCAGACATGGTCTTATACTGGCTCTCATATATGCGTTCTGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTCTCATATTTGAG--CCAATG
* * * * *
35709701 CATGTCCCAGACATGTCTTACACTCGCCCTCGT-CTGGATGCCAATG
1 CATGTCCCAGACATGTCTTACACTGGCTCTCATATTTGA-GCCAATG
*
35709747 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATTTG-GCCAAAG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-ATTTGAGCCAATG
35709795 CATGTCCCAGACATGTCTTACAC
1 CATGTCCCAGACATGTCTTACAC
35709818 GGGCGCAAAA
Statistics
Matches: 96, Mismatches: 16, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
46 13 0.14
47 29 0.30
48 38 0.40
49 14 0.15
50 2 0.02
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.29
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCTCTCATATTTGAGCCAATG
Found at i:35717127 original size:46 final size:46
Alignment explanation
Indices: 35717040--35717239 Score: 215
Period size: 46 Copynumber: 4.3 Consensus size: 46
35717030 CGTGTCACAC
* * * *
35717040 GTCTTACACTGGCTATCTTAGTCGAGGCCGATGCATGTCCCAGACAT
1 GTCTTACACTGGCTCTCATAAT-GTGGCCGATGCATGTCCCAGACAT
* *
35717087 GTCTTACTCTGGCTCTCATAATGTGGCTGATGCATGTCCCAGACAT
1 GTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAGACAT
* * * * *
35717133 GTCTTACACTAGCTCTCGT-CTG-GATGCCGATTCCATGCCCCAGACAT
1 GTCTTACACTGGCTCTCATAATGTG--GCCGA-TGCATGTCCCAGACAT
* * *
35717180 GGTCTTACACTGGCTCTAATAATGTGGCCGAAGCATGTCCCAAACAT
1 -GTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAGACAT
35717227 GTCTTACACTGGC
1 GTCTTACACTGGC
35717240 GCACAAATCA
Statistics
Matches: 126, Mismatches: 21, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
44 1 0.01
45 2 0.02
46 55 0.44
47 44 0.35
48 21 0.17
49 2 0.02
50 1 0.01
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.28
Consensus pattern (46 bp):
GTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAGACAT
Found at i:35720733 original size:49 final size:48
Alignment explanation
Indices: 35720583--35720753 Score: 188
Period size: 49 Copynumber: 3.6 Consensus size: 48
35720573 TGTTATAGCC
* * * *
35720583 AGTGTAAGACCTGTCTAGGACATGGCATCGGCCTCAAGATATGCAAGCT
1 AGTGTAAGACCTATCTAGGACATGGCATCAGCCTCAAG-TATGTAAGTT
* * ** *
35720632 AGTGTAAGACCTATTTAGGAGATGGCATCAG-CTTGAG-GTGT--GTT
1 AGTGTAAGACCTATCTAGGACATGGCATCAGCCTCAAGTATGTAAGTT
* *
35720676 AGTATAAGACCTATCTGGGACATGGCATCAGCCTCAAAGTATGTAAGTT
1 AGTGTAAGACCTATCTAGGACATGGCATCAGCCTC-AAGTATGTAAGTT
*
35720725 AGTGTAAGACCTGTCTAGGACATGGCATC
1 AGTGTAAGACCTATCTAGGACATGGCATC
35720754 GACTTAGATG
Statistics
Matches: 98, Mismatches: 19, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
44 29 0.30
45 2 0.02
46 4 0.04
47 3 0.03
48 4 0.04
49 56 0.57
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (48 bp):
AGTGTAAGACCTATCTAGGACATGGCATCAGCCTCAAGTATGTAAGTT
Found at i:35722068 original size:22 final size:21
Alignment explanation
Indices: 35722043--35722084 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
35722033 GTCAAGAAAG
*
35722043 CCACACGGGCGTGTCGCCCCTC
1 CCACACGAGCGTGT-GCCCCTC
*
35722065 CCACACGAGTGTGTGCCCCT
1 CCACACGAGCGTGTGCCCCT
35722085 ATATCAAGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.12, C:0.45, G:0.26, T:0.17
Consensus pattern (21 bp):
CCACACGAGCGTGTGCCCCTC
Found at i:35729766 original size:124 final size:124
Alignment explanation
Indices: 35729544--35729768 Score: 326
Period size: 124 Copynumber: 1.8 Consensus size: 124
35729534 GAATTATGTG
* * * * * * *
35729544 AAATGAAATATGGATGTGTATTGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
* **
35729609 GCTAAGTCCCGAAGGCGATTATGCTAGTGATTATATTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGACGATTATGCTAGAAATTATATTTGTGTTTGAGCCTTAGTAACGA
*
35729668 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATATCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
*
35729733 GCTAAGTCCCGAAGACG-TTATTGCTGGAAATTATAT
66 GCTAAGTCCCGAAGACGATTA-TGCTAGAAATTATAT
35729769 CCGGGTTAAG
Statistics
Matches: 88, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
123 3 0.03
124 85 0.97
ACGTcount: A:0.31, C:0.10, G:0.24, T:0.35
Consensus pattern (124 bp):
AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
GCTAAGTCCCGAAGACGATTATGCTAGAAATTATATTTGTGTTTGAGCCTTAGTAACGA
Found at i:35729850 original size:40 final size:40
Alignment explanation
Indices: 35729763--35729852 Score: 137
Period size: 40 Copynumber: 2.2 Consensus size: 40
35729753 TTGCTGGAAA
*
35729763 TTATATCCGGGTTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
* *
35729803 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTCG
35729843 TTATATCCGG
1 TTATATCCGG
35729853 TTGTATTCCG
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
39 1 0.02
40 44 0.98
ACGTcount: A:0.21, C:0.24, G:0.29, T:0.26
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
Found at i:35742858 original size:39 final size:39
Alignment explanation
Indices: 35742778--35742938 Score: 252
Period size: 39 Copynumber: 4.2 Consensus size: 39
35742768 TATGGTAACC
* * *
35742778 CGCACAAATGCCTTCGGACTTAACCC-GATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
35742816 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
35742855 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
35742894 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
35742933 CGCACA
1 CGCACA
35742939 TTCATACACA
Statistics
Matches: 112, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
38 23 0.21
39 89 0.79
ACGTcount: A:0.24, C:0.34, G:0.19, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:35750754 original size:39 final size:39
Alignment explanation
Indices: 35750673--35750835 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
35750663 TATGGTAACC
* *
35750673 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
35750713 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
35750752 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
35750791 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
35750830 CGCACA
1 CGCACA
35750836 TTCATACACA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:35753958 original size:93 final size:92
Alignment explanation
Indices: 35753800--35753970 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 92
35753790 AGGATGTTTG
* *
35753800 GGCATCCGAACTCGTTGAGTTGAGTCCAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GGCATCCGAACTCGTTGAGTTGAGTCCAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
35753865 TGAGTCCGAGTTCGAGAGATGTAACTA
66 TGAGTCCGAGTTCGAGAGATGTAACTA
* *
35753892 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCC-AGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
35753957 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
35753971 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 26 0.35
93 48 0.65
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (92 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:35753964 original size:46 final size:46
Alignment explanation
Indices: 35753805--35753978 Score: 201
Period size: 46 Copynumber: 3.8 Consensus size: 46
35753795 GTTTGGGCAT
* *
35753805 CCGAACTCGTTGAGTTGAGTCC-AGTTCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*** * * * *
35753850 CCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-AC-TAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGAACGC
*
35753895 ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
35753943 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
35753979 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
45 24 0.22
46 47 0.44
47 33 0.31
48 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:35757647 original size:39 final size:39
Alignment explanation
Indices: 35757566--35757728 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
35757556 TATGGTAACC
* *
35757566 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
35757606 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
35757645 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
35757684 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
35757723 CGCACA
1 CGCACA
35757729 TTCATACACA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:35765580 original size:39 final size:39
Alignment explanation
Indices: 35765499--35765661 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
35765489 TATGGTAACC
* *
35765499 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
35765539 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
35765578 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
35765617 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
35765656 CGCACA
1 CGCACA
35765662 TTCATACACA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:35775332 original size:40 final size:39
Alignment explanation
Indices: 35775275--35775460 Score: 201
Period size: 40 Copynumber: 4.7 Consensus size: 39
35775265 ATTAAATGAT
* *
35775275 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCTAGT-GTTAA
* * *
35775315 ATCCGGGTTAAGACCCGAAGGCAATTATGCTAGTGACTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTG-TTAA
** *
35775355 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGTTAA
* * * **
35775395 ATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTCT
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCTAGT-GTTAA
* *
35775435 ATTCAGGCTAAGACCCGAAGGCATTT
1 ATCCGGGCTAAGACCCGAAGGCATTT
35775461 GTGCATGTGG
Statistics
Matches: 125, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
39 2 0.02
40 121 0.97
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (39 bp):
ATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGTTAA
Found at i:35775411 original size:80 final size:80
Alignment explanation
Indices: 35775274--35775465 Score: 226
Period size: 80 Copynumber: 2.4 Consensus size: 80
35775264 AATTAAATGA
* * * * *
35775274 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAAATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
*
35775339 TTATGCTAGT-G-AC
66 TTATGCAAGTCGTAC
* * *
35775352 TAAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGC
* * *
35775417 ATTTGTGCAAGTCGTTC
64 AATTATGCAAGTCGTAC
* *
35775434 TATTCAGGCTAAGACCCGAAGGCATTTGTGCA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCA
35775466 TGTGGTTATA
Statistics
Matches: 95, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
78 1 0.01
80 91 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
TTATGCAAGTCGTAC
Found at i:35779614 original size:29 final size:29
Alignment explanation
Indices: 35779588--35779653 Score: 73
Period size: 28 Copynumber: 2.2 Consensus size: 29
35779578 GATTTTGAGT
*
35779588 AAAAA-TGTATATT-AGGGATTAAATTGA
1 AAAAATTGTAAATTGAGGGATTAAATTGA
*
35779615 AAAAATTGTAAATTGAGGGGTTAAAATGTGA
1 AAAAATTGTAAATTGAGGGATT-AAAT-TGA
35779646 AATAAATT
1 AA-AAATT
35779654 AAAATTATGG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
27 5 0.16
28 7 0.22
29 6 0.19
30 4 0.12
31 5 0.16
32 5 0.16
ACGTcount: A:0.48, C:0.00, G:0.20, T:0.32
Consensus pattern (29 bp):
AAAAATTGTAAATTGAGGGATTAAATTGA
Found at i:35780141 original size:40 final size:40
Alignment explanation
Indices: 35780058--35780168 Score: 107
Period size: 40 Copynumber: 2.8 Consensus size: 40
35780048 CTATGTTCAT
*
35780058 CACTAAGTGTGCAATTTTAAATAGCTTCGGCTATAAATAG
1 CACTAAGTGTGCAATTTGAAATAGCTTCGGCTATAAATAG
* * ** *
35780098 CACTAAGTGTGCGAA-TTGGAATAGCTTCTGCTATATGTGG
1 CACTAAGTGTGC-AATTTGAAATAGCTTCGGCTATAAATAG
* * * *
35780138 CACTAGGTATGCAATATTGAGATAGTTTCGG
1 CACTAAGTGTGCAAT-TTGAAATAGCTTCGG
35780169 TTTAATATGA
Statistics
Matches: 56, Mismatches: 12, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
39 2 0.04
40 41 0.73
41 13 0.23
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.32
Consensus pattern (40 bp):
CACTAAGTGTGCAATTTGAAATAGCTTCGGCTATAAATAG
Found at i:35782749 original size:11 final size:11
Alignment explanation
Indices: 35782719--35782757 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
35782709 AACTTACTCT
35782719 ATTTCTTTTCC
1 ATTTCTTTTCC
*
35782730 A--TATTTTCC
1 ATTTCTTTTCC
35782739 ATTTCTTTTCC
1 ATTTCTTTTCC
35782750 ATTTCTTT
1 ATTTCTTT
35782758 CATTTTAGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
9 8 0.33
11 16 0.67
ACGTcount: A:0.13, C:0.23, G:0.00, T:0.64
Consensus pattern (11 bp):
ATTTCTTTTCC
Found at i:35785373 original size:47 final size:46
Alignment explanation
Indices: 35785300--35785568 Score: 138
Period size: 47 Copynumber: 5.8 Consensus size: 46
35785290 ATTTGAGTGT
* * * * *
35785300 GAGCTAGTGTAA-AACATGTTTGGGACATGCATCGACCACATTATGA
1 GAGCCAGTGTAAGACCATGTCTAGGACATGCATCGACCACA-TACGA
* *** *
35785346 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGTA-TTGAGACGA
1 GAGCCAGTGTAAGACCATGTCTAGGACAT-GCATC-G-ACCACATACGA
* * * *
35785394 GAGCTAGTGTAAGA-CATGTCTAGGACATGCATCGGCCTCGAGACGTA
1 GAGCCAGTGTAAGACCATGTCTAGGACATGCATCGACCAC-ATACG-A
* * * * * * *
35785441 -AACTAGTGTAAGA-CATGTCTAGGACATGCATCGGCTAGGAGAAGA
1 GAGCCAGTGTAAGACCATGTCTAGGACATGCATCGACCA-CATACGA
* * * * * *
35785486 TAGTCAGTGTAAGACCATGTCTGGGACATGACATCGACTTGAGATA--T
1 GAGCCAGTGTAAGACCATGTCTAGGACATG-CATCGAC--CACATACGA
*
35785533 GAGCCAGTGTAATACCATGTCTAGGACATGGCATCG
1 GAGCCAGTGTAAGACCATGTCTAGGACAT-GCATCG
35785569 GTACCTTACC
Statistics
Matches: 179, Mismatches: 30, Indels: 27
0.76 0.13 0.11
Matches are distributed among these distances:
45 3 0.02
46 69 0.39
47 72 0.40
48 28 0.16
49 5 0.03
50 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (46 bp):
GAGCCAGTGTAAGACCATGTCTAGGACATGCATCGACCACATACGA
Found at i:35785447 original size:46 final size:46
Alignment explanation
Indices: 35785351--35785569 Score: 162
Period size: 46 Copynumber: 4.7 Consensus size: 46
35785341 TATGAGAGCC
* * * * *
35785351 AGTGTAAGACCATGTCTGGGACATGGCATCAGTATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTAGGACAT-GCATCGGCATCGAGACGAGAACT
*
35785399 AGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGACGTA-AACT
1 AGTGTAAGACATGTCTAGGACATGCATCGGCATCGAGACG-AGAACT
* *
35785445 AGTGTAAGACATGTCTAGGACATGCATCGGC-TAG-GA-GAAGATAGT
1 AGTGTAAGACATGTCTAGGACATGCATCGGCATCGAGACG-AGA-ACT
* * * * * *
35785490 CAGTGTAAGACCATGTCTGGGACATGACATCGAC-TTGAGA-TATGAGCC
1 -AGTGTAAGA-CATGTCTAGGACATG-CATCGGCATCGAGACGA-GAACT
*
35785538 AGTGTAATACCATGTCTAGGACATGGCATCGG
1 AGTGTAAGA-CATGTCTAGGACAT-GCATCGG
35785570 TACCTTACCC
Statistics
Matches: 143, Mismatches: 19, Indels: 19
0.79 0.10 0.10
Matches are distributed among these distances:
43 2 0.01
44 3 0.02
45 4 0.03
46 56 0.39
47 55 0.38
48 19 0.13
49 4 0.03
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTAGGACATGCATCGGCATCGAGACGAGAACT
Found at i:35785513 original size:93 final size:95
Alignment explanation
Indices: 35785351--35785567 Score: 239
Period size: 93 Copynumber: 2.3 Consensus size: 95
35785341 TATGAGAGCC
* * *
35785351 AGTGTAAGACCATGTCTGGGACATGGCATCAGTATTGAGACGAGAGCTAGTGTAAGACATGTCTA
1 AGTGTAAGACCATGTCTAGGACATGGCATCAGTATGGAGAAGAGAGCTAGTGTAAGACATGTCTA
35785416 GGACATG-CATCGGCCTCGAGACGTAAACT
66 GGACATGACATCGGCCTCGAGACGTAAACT
* *
35785445 AGTGTAAGA-CATGTCTAGGACAT-GCATCGGCTA-GGAGAAGATAG-TCAGTGTAAGACCATGT
1 AGTGTAAGACCATGTCTAGGACATGGCATCAG-TATGGAGAAGAGAGCT-AGTGTAAGA-CATGT
* * * ** * * *
35785506 CTGGGACATGACATC-GACTTGAGATATGAGCC
63 CTAGGACATGACATCGGCCTCGAGACGTAAACT
*
35785538 AGTGTAATACCATGTCTAGGACATGGCATC
1 AGTGTAAGACCATGTCTAGGACATGGCATC
35785568 GGTACCTTAC
Statistics
Matches: 103, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
91 1 0.01
92 23 0.22
93 47 0.46
94 27 0.26
95 5 0.05
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.23
Consensus pattern (95 bp):
AGTGTAAGACCATGTCTAGGACATGGCATCAGTATGGAGAAGAGAGCTAGTGTAAGACATGTCTA
GGACATGACATCGGCCTCGAGACGTAAACT
Found at i:35788963 original size:46 final size:48
Alignment explanation
Indices: 35788721--35789038 Score: 248
Period size: 46 Copynumber: 6.7 Consensus size: 48
35788711 AGGGTATAAT
* * *
35788721 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGC-T-CATC-CATCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGTCTTACATCTC-T-AG
* * * *** * ** *
35788768 GTCGATGCCATGTCCCAGATATGGTCTTACGCCAACTATAAAAATCAAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGTCT-TACATCTCTAG
* * *
35788817 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATAT-TAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT-G-TCTTACATCTCT-AG
* * * *
35788867 GCTGATGCCATGTTCCAGACATGGTCTTACACAGAC--ACATCTCGTA-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGTCTTACATCTC-TAG
35788913 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGTCTTACATCTCTAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGTCTTACATCTCTAG
* * *
35788959 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAG-CTCT-CGTCTCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT-GTCT-TACATCTCTAG
*
35789005 ACCGATGCCATGTCCCAGACATGGTCTTACACTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTG
35789039 GCTATCGTAA
Statistics
Matches: 219, Mismatches: 36, Indels: 32
0.76 0.13 0.11
Matches are distributed among these distances:
44 11 0.05
45 15 0.07
46 63 0.29
47 47 0.21
48 12 0.05
49 32 0.15
50 36 0.16
51 3 0.01
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGTCTTACATCTCTAG
Found at i:35789032 original size:94 final size:93
Alignment explanation
Indices: 35788817--35789088 Score: 288
Period size: 94 Copynumber: 2.9 Consensus size: 93
35788807 AAAAATCAAG
* * *
35788817 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATTAATGCTGATGCCATGTTC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT-G-TCTTACATATT-AGGCTGATG-CATGTCC
*
35788882 CAGACATGGTCTTACAC-AG-ACACATCTCGTA
62 CAGACAT-GTCTTACACTAGCACACATCTCATA
* *
35788913 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGTCTTACATCTCTAGGCCGATGCATGTCCCAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGTCTTACATAT-TAGGCTGATGCATGTCCCAG
* * *
35788976 ACATGTCTTACACTAGCTCTCGTCTCAATA
65 ACATGTCTTACACTAGCACACATCTC-ATA
* * *
35789006 -CCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TATCGTAATGT-GGCTGATGCATGTCAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGTCTTA-CAT-AT-TAGGCTGATGCATGTCCC
*
35789068 AAACATGTCTTACACTAGCAC
63 AGACATGTCTTACACTAGCAC
35789089 GCAAATAACC
Statistics
Matches: 151, Mismatches: 17, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
90 9 0.06
91 15 0.10
92 27 0.18
93 20 0.13
94 57 0.38
95 16 0.11
96 7 0.05
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (93 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGTCTTACATATTAGGCTGATGCATGTCCCAGA
CATGTCTTACACTAGCACACATCTCATA
Found at i:35789078 original size:140 final size:141
Alignment explanation
Indices: 35788815--35789083 Score: 348
Period size: 140 Copynumber: 1.9 Consensus size: 141
35788805 ATAAAAATCA
* * *
35788815 AGGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATTAATGCTGATGCCATGT
1 AGGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT-ACATATCAATACCGATGCCATGT
* * *
35788880 TCCAGACATGGTCTTACACAGACACATCTCGTAGCCGATGCATGTCCCAGACATGTCTTACACTG
65 CCCAGACATGGTCTTACACAGACACATCTCGTAGCCGATGCATGTCACAAACATGTCTTACACTG
35788945 TCTTACATCTCT
130 TCTTACATCTCT
* *
35788957 AGGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCT-CGTCTCAATACCGATGCCATGTC
1 AGGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTACATATCAATACCGATGCCATGTC
* * * * * *
35789019 CCAGACATGGTCTTACACTGGC-TATCGTAATGTGGCTGATGCATGTCACAAACATGTCTTACAC
66 CCAGACATGGTCTTACACAGACACATC-T--CGTAGCCGATGCATGTCACAAACATGTCTTACAC
35789083 T
128 T
35789084 AGCACGCAAA
Statistics
Matches: 110, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
137 3 0.03
138 38 0.35
140 46 0.42
141 14 0.13
142 9 0.08
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (141 bp):
AGGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTACATATCAATACCGATGCCATGTC
CCAGACATGGTCTTACACAGACACATCTCGTAGCCGATGCATGTCACAAACATGTCTTACACTGT
CTTACATCTCT
Found at i:35791490 original size:20 final size:20
Alignment explanation
Indices: 35791465--35791504 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
35791455 AAATACTAAC
35791465 GTGTCTGAACTGAAAATCGA
1 GTGTCTGAACTGAAAATCGA
* *
35791485 GTGTCTGAATTGAAGATCGA
1 GTGTCTGAACTGAAAATCGA
35791505 ATATGTTCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.12, G:0.28, T:0.28
Consensus pattern (20 bp):
GTGTCTGAACTGAAAATCGA
Found at i:35796806 original size:138 final size:138
Alignment explanation
Indices: 35796596--35796856 Score: 450
Period size: 138 Copynumber: 1.9 Consensus size: 138
35796586 CTGCCCCATA
* * *
35796596 GGCATGTGGTTTGGCCGTGTGTCCCCTGCACCTAAATTTTAAGAAATAGAATGCTCAGAGTTGAG
1 GGCATGTGGTTTGGCCATGTGTCCCCTACACCTAAATTTTAAGAAATAGAATGCTCAAAGTTGAG
* *
35796661 CAGAATGGCAGAGACACGGGAGTATGTCTCAGCTGTGTGTAGGACATGGCCTCAGGCACGAGCCT
66 CACAATGGCAGAGACACGGGAGTATGTCTCAGCTGTGTGGAGGACATGGCCTCAGGCACGAGCCT
35796726 GGCCGATG
131 GGCCGATG
* *
35796734 GGCATGTGGTTTGGTCATGTGTCCCCTACACCTAAATTTTGAGAAATAGAATGCTCAAAGTTGAG
1 GGCATGTGGTTTGGCCATGTGTCCCCTACACCTAAATTTTAAGAAATAGAATGCTCAAAGTTGAG
*
35796799 CACAATGGCAGAGACACGGGAGTATGTCTCAGCTGTGTGGAGGTCATGGCCTCAGGCA
66 CACAATGGCAGAGACACGGGAGTATGTCTCAGCTGTGTGGAGGACATGGCCTCAGGCA
35796857 TAGGCCTGTG
Statistics
Matches: 115, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
138 115 1.00
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.24
Consensus pattern (138 bp):
GGCATGTGGTTTGGCCATGTGTCCCCTACACCTAAATTTTAAGAAATAGAATGCTCAAAGTTGAG
CACAATGGCAGAGACACGGGAGTATGTCTCAGCTGTGTGGAGGACATGGCCTCAGGCACGAGCCT
GGCCGATG
Found at i:35798863 original size:29 final size:29
Alignment explanation
Indices: 35798821--35798881 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
35798811 TAAATGGGCA
35798821 CCTTTGTGATGATCTCTATTATAA-GGAAG
1 CCTTTGTGATGATCTCTATTA-AATGGAAG
* *
35798850 CCTTTGTGGA-GATCTTTGTTAAATGGAAG
1 CCTTTGT-GATGATCTCTATTAAATGGAAG
35798879 CCT
1 CCT
35798882 ATATAGCAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 2 0.07
29 24 0.86
30 2 0.07
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (29 bp):
CCTTTGTGATGATCTCTATTAAATGGAAG
Found at i:35801512 original size:40 final size:42
Alignment explanation
Indices: 35801445--35801539 Score: 108
Period size: 40 Copynumber: 2.4 Consensus size: 42
35801435 TCTCAGTATC
* *
35801445 GCACACTTAGTGCC-TCATATAGCCGAAGCTA-TTCCAACTA
1 GCACACTTAGTGCCATCATATAGCCGAAGCCATTTCCAACCA
* * * *
35801485 GCACACTTAGTGCCAT-TTGTAGTCGAAGCCATTTCGAACCA
1 GCACACTTAGTGCCATCATATAGCCGAAGCCATTTCCAACCA
35801526 -CACACTTAGTGCCA
1 GCACACTTAGTGCCA
35801540 AACATAGTCA
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
40 39 0.83
41 8 0.17
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.25
Consensus pattern (42 bp):
GCACACTTAGTGCCATCATATAGCCGAAGCCATTTCCAACCA
Found at i:35805436 original size:18 final size:19
Alignment explanation
Indices: 35805413--35805451 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
35805403 TTGTTGATCG
*
35805413 ATGAATGTGTGG-TAAAGT
1 ATGAATGTGGGGCTAAAGT
35805431 ATGAATGTGGGGCTAAAGT
1 ATGAATGTGGGGCTAAAGT
35805450 AT
1 AT
35805452 AAGAGATGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.33, C:0.03, G:0.33, T:0.31
Consensus pattern (19 bp):
ATGAATGTGGGGCTAAAGT
Found at i:35811012 original size:40 final size:40
Alignment explanation
Indices: 35810953--35811169 Score: 287
Period size: 40 Copynumber: 5.5 Consensus size: 40
35810943 CGGATGATAA
*
35810953 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
* *
35810993 CCGAGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
* * *
35811033 CAGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
* *
35811073 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
* * *
35811113 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTACAT
* *
35811152 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
35811170 TACTTGGCTT
Statistics
Matches: 161, Mismatches: 15, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
38 15 0.09
39 15 0.09
40 131 0.81
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
Found at i:35811405 original size:27 final size:27
Alignment explanation
Indices: 35811375--35811430 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
35811365 TGAAGTAAGT
35811375 ATGATATTGAGAATTTGTGCATATGAA
1 ATGATATTGAGAATTTGTGCATATGAA
35811402 ATGATATTGAGAATTTGTGCATATGAA
1 ATGATATTGAGAATTTGTGCATATGAA
35811429 AT
1 AT
35811431 TATCCGTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.38, C:0.04, G:0.21, T:0.38
Consensus pattern (27 bp):
ATGATATTGAGAATTTGTGCATATGAA
Found at i:35816168 original size:702 final size:701
Alignment explanation
Indices: 35815124--35816521 Score: 2399
Period size: 702 Copynumber: 2.0 Consensus size: 701
35815114 AATGTTGATT
35815124 GAGTTCGTATAAGCCCACATATGTTATTTATTTCATATTTTAGTCCCTCAATTTAAAAATTTCAC
1 GAGTTCGTATAAGCCCACATATGTTATTTATTTCATATTTTAGTCCCTCAATTTAAAAATTTCAC
*
35815189 AATTTAGCCCATTTTACTCAAATTCATCAAAAATTACAAAACATGTTAACCCAATACATATCTTT
66 AATTTAGCCCATTTTACTCAAATTAATCAAAAATTACAAAACATGTTAACCCAATACATATCTTT
*
35815254 CATTTAGTAACATCAACCTTCATAAATCTCATAATTTCATCAATGGCTCAACTCAAAATCATCAA
131 CATTTACTAACATCAACCTTCATAAATCTCATAATTTCATCAATGGCTCAACTCAAAATCATCAA
* *
35815319 CAATTTCAGAAATTGAGACATTGGCTTGATAGATTATTAATAAACAATTACAAAAACGTAGAAAT
196 CAATTTCAGAAATTGAGACATGGGCTTGATAGATTATTAAGAAACAATTACAAAAACGTAGAAAT
* *
35815384 TATCAAAAACGGATCAAAATGCATACCTTAATCACCAAAATCAATAGCCAAACCCTAAAACCACA
261 TATCAAAAACAGATCAAAACGCATACCTTAATCACCAAAATCAATAGCCAAACCCTAAAACCACA
* *
35815449 ACCTTGGCTTTCTTTCTTTTGATTTTCAGCAATATCATGAACAAAATGGCTAATTTCATGCTTTT
326 ACCTTGGCTTTCTTTCTTTTGATTTTCAGCAATAGCATGAACAAAATCGCTAATTTCATGCTTTT
* *
35815514 AGTTTTATTTTAATTAACATTAATAATCATTTTACCATTTTACCCTTGCATTAAAACATTAATAA
391 AATTTTATTTTAATTAACATTAATAATCATTTTACCATTTTACCCTTGAATTAAAACATTAATAA
* **
35815579 ACCATTATATTAAGGCCATTAATATCCACTCATATGTTCAATGGTCAAATAACAACATAAGGACC
456 ACCATTATATTAAGGCCATTAATATCCACTCATATGTTCAATGGTCAAATAAAAACATAAAAACC
* * *
35815644 TCTCAATTATAAAGACAA-AAC-AACTAGGTTCTTTAACAAATATAAGGCCACTTTTACATTTTA
521 TCTCAATTATAAAGA-AATAACGAA-TAGGTACTTTAACAAAAAGAAGGCCACTTTTACATTTTA
* *
35815707 TGCGATTAGGTCCTTTTATCAAATTAAGCACACAAACGATTAAATTTTCATACGAAACTTTCACA
584 TGCGATTAGGTCCTTTTATCAAATTAAGCACACAAACGATTAAATTTTAACACGAAACTTTCACA
35815772 AATGCTTAACCACATACTGTAAACACAGAAATTAATATTAAAATAATTTCCATA
649 AATGCTTAACCACATACTGTAAACACAGAAA-TAATATTAAAATAATTTCCATA
* * *
35815826 GAGTTTGTATAAGCTCACATAT-TTCATTTCTTTCATATTTTAGTCCCTCAATTTAAAAATTTCA
1 GAGTTCGTATAAGCCCACATATGTT-ATTTATTTCATATTTTAGTCCCTCAATTTAAAAATTTCA
*
35815890 CAATTTAGCCCATTTTACTCAAATTAATCAAAAATTACAAAACATGTTAACCCAATGCATATCTT
65 CAATTTAGCCCATTTTACTCAAATTAATCAAAAATTACAAAACATGTTAACCCAATACATATCTT
35815955 TCATTTACTAACATCAACCTTCATAAATCTCATAATTTCATCAATGGCTCAACAT-AAAATCATC
130 TCATTTACTAACATCAACCTTCATAAATCTCATAATTTCATCAATGGCTCAAC-TCAAAATCATC
* * *
35816019 AACAATTTCAGACATTGAGACATGGGCTTGATAGATTATTAAGCAGCAATTACAAAAACGTAGAA
194 AACAATTTCAGAAATTGAGACATGGGCTTGATAGATTATTAAGAAACAATTACAAAAACGTAGAA
**
35816084 ATTATTTAAAACAGATCAAAACGCATACCTTAATCACCAAAATCAATAGCCAAACCCTAAAACCA
259 ATTATCAAAAACAGATCAAAACGCATACCTTAATCACCAAAATCAATAGCCAAACCCTAAAACCA
*
35816149 CAACCTTGGCTTTCTTTCTTTTGATTTTCAGCAATAGCATGAACAAAATCTCTAATTTCATGCTT
324 CAACCTTGGCTTTCTTTCTTTTGATTTTCAGCAATAGCATGAACAAAATCGCTAATTTCATGCTT
*
35816214 TTAATTTTATTTTAATTAACATTAATATTCATTTTACCATTTTACCCTTGAATTAAAACATTAAT
389 TTAATTTTATTTTAATTAACATTAATAATCATTTTACCATTTTACCCTTGAATTAAAACATTAAT
* *
35816279 AAACTATTATATTAAGGCCATTAATGTCCACTCATATGTTCAATGGTCAAATAAAAACATAAAAA
454 AAACCATTATATTAAGGCCATTAATATCCACTCATATGTTCAATGGTCAAATAAAAACATAAAAA
* * *
35816344 CCTCTCAATTCTAAAGAAATAACGGATAGGTACTTTAGCAAAAAGAAGGCCACTTTTACATTTTA
519 CCTCTCAATTATAAAGAAATAACGAATAGGTACTTTAACAAAAAGAAGGCCACTTTTACATTTTA
*
35816409 TGCGATTAGGTCCTTTTATCAAATTCAGCACACAAACGATTAAATTTTAACACGAAACTTTCACA
584 TGCGATTAGGTCCTTTTATCAAATTAAGCACACAAACGATTAAATTTTAACACGAAACTTTCACA
*
35816474 AATGCTTAACCACATACTGTAAACATAGAAATAATATTAAAATAATTT
649 AATGCTTAACCACATACTGTAAACACAGAAATAATATTAAAATAATTT
35816522 TTCTTACTCA
Statistics
Matches: 656, Mismatches: 36, Indels: 9
0.94 0.05 0.01
Matches are distributed among these distances:
701 21 0.03
702 633 0.96
703 2 0.00
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.33
Consensus pattern (701 bp):
GAGTTCGTATAAGCCCACATATGTTATTTATTTCATATTTTAGTCCCTCAATTTAAAAATTTCAC
AATTTAGCCCATTTTACTCAAATTAATCAAAAATTACAAAACATGTTAACCCAATACATATCTTT
CATTTACTAACATCAACCTTCATAAATCTCATAATTTCATCAATGGCTCAACTCAAAATCATCAA
CAATTTCAGAAATTGAGACATGGGCTTGATAGATTATTAAGAAACAATTACAAAAACGTAGAAAT
TATCAAAAACAGATCAAAACGCATACCTTAATCACCAAAATCAATAGCCAAACCCTAAAACCACA
ACCTTGGCTTTCTTTCTTTTGATTTTCAGCAATAGCATGAACAAAATCGCTAATTTCATGCTTTT
AATTTTATTTTAATTAACATTAATAATCATTTTACCATTTTACCCTTGAATTAAAACATTAATAA
ACCATTATATTAAGGCCATTAATATCCACTCATATGTTCAATGGTCAAATAAAAACATAAAAACC
TCTCAATTATAAAGAAATAACGAATAGGTACTTTAACAAAAAGAAGGCCACTTTTACATTTTATG
CGATTAGGTCCTTTTATCAAATTAAGCACACAAACGATTAAATTTTAACACGAAACTTTCACAAA
TGCTTAACCACATACTGTAAACACAGAAATAATATTAAAATAATTTCCATA
Found at i:35821586 original size:19 final size:18
Alignment explanation
Indices: 35821562--35821608 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
35821552 CTAAACCGAG
35821562 AACTTACAAATTTTTCCAA
1 AACTTACAAATTTTT-CAA
*
35821581 AACTTA-AACATTTTTTAA
1 AACTTACAA-ATTTTTCAA
*
35821599 AAGTTACAAA
1 AACTTACAAA
35821609 GGTCACACAC
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
18 10 0.42
19 14 0.58
ACGTcount: A:0.47, C:0.15, G:0.02, T:0.36
Consensus pattern (18 bp):
AACTTACAAATTTTTCAA
Found at i:35825495 original size:71 final size:71
Alignment explanation
Indices: 35825411--35825574 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
35825401 CGATTTGTCT
35825411 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
35825476 CTTTCA
66 CTTTCA
35825482 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
35825547 CTTTCA
66 CTTTCA
35825553 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
35825575 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:35825612 original size:71 final size:70
Alignment explanation
Indices: 35825411--35825608 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
35825401 CGATTTGTCT
* * * *
35825411 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
35825476 CTTTCA
65 CTTTCA
* * * *
35825482 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
35825547 CTTTCA
65 CTTTCA
* *
35825553 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
35825609 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:35828235 original size:14 final size:14
Alignment explanation
Indices: 35828216--35828258 Score: 68
Period size: 14 Copynumber: 3.1 Consensus size: 14
35828206 AGGTGGTCTA
35828216 GTTGAACCGAACCG
1 GTTGAACCGAACCG
35828230 GTTGAACCGAACCG
1 GTTGAACCGAACCG
* *
35828244 ATTGAACTGAACCG
1 GTTGAACCGAACCG
35828258 G
1 G
35828259 CCAAGGATTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.30, C:0.26, G:0.28, T:0.16
Consensus pattern (14 bp):
GTTGAACCGAACCG
Found at i:35831190 original size:43 final size:43
Alignment explanation
Indices: 35831143--35831274 Score: 219
Period size: 43 Copynumber: 3.1 Consensus size: 43
35831133 GTTAATCCAA
35831143 AGCCAAGTAGCTACATTGAAAAACCTAGAAAACCAAATGGGGC
1 AGCCAAGTAGCTACATTGAAAAACCTAGAAAACCAAATGGGGC
* * *
35831186 AGCCAAGTAGCTATATTGAAAAACCTAGAAAACTAAATGGGTC
1 AGCCAAGTAGCTACATTGAAAAACCTAGAAAACCAAATGGGGC
* *
35831229 AGCCAAGTAGCTACACTGGAAAACCTAGAAAACCAAATGGGGC
1 AGCCAAGTAGCTACATTGAAAAACCTAGAAAACCAAATGGGGC
35831272 AGC
1 AGC
35831275 TGGCAACTGA
Statistics
Matches: 81, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 81 1.00
ACGTcount: A:0.43, C:0.20, G:0.21, T:0.15
Consensus pattern (43 bp):
AGCCAAGTAGCTACATTGAAAAACCTAGAAAACCAAATGGGGC
Found at i:35834768 original size:15 final size:13
Alignment explanation
Indices: 35834739--35834765 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
35834729 GCTTGGAAGG
35834739 GACACGCCCGTGT
1 GACACGCCCGTGT
35834752 GACACGCCCGTGT
1 GACACGCCCGTGT
35834765 G
1 G
35834766 TGATTACTTC
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:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:35836225 original size:93 final size:93
Alignment explanation
Indices: 35836113--35836284 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
35836103 GCCCATAAGT
* *
35836113 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
35836178 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
35836206 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
35836271 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
35836285 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Done.