Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 198 of 221
Found at i:57982230 original size:23 final size:23
Alignment explanation
Indices: 57982203--57982300 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
57982193 AGTGTTATTG
57982203 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
57982226 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
57982249 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
57982271 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
57982294 ATCAGTG
1 ATCAGTG
57982301 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:57982269 original size:45 final size:45
Alignment explanation
Indices: 57982205--57982293 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
57982195 TGTTATTGAT
* *
57982205 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
57982250 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
57982294 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:58004653 original size:219 final size:219
Alignment explanation
Indices: 58004274--58004679 Score: 686
Period size: 219 Copynumber: 1.9 Consensus size: 219
58004264 ATCGTCTTCA
* * *
58004274 TCGCTGTTGTATATCGAAACCTAGGCAAGTCATTGGAATCCTCTGTTTCAACCTCATTGTGGGCT
1 TCGCTGTTCTATATCGAAACCTAGGCAAGTCATTGGAATCCTCTGTTTCAACCACATTGTGGACT
* *
58004339 TCCCCTTCGTCCAGTTCCATGTCTATCATTTTGCTTCTGTATATCGGCTGTGAGTTTGGACACTC
66 TCCCCTTCGTCCAGTTCCATGTCTATCATTTTGCTTCTGTATATCCGCCGTGAGTTTGGACACTC
58004404 ATTGACACTGGGTTCCGCCTTTTCTCCATTTTCAGACCCCGTTGCAGCAGCAGCCATCGTCTTCA
131 ATTGACACTGGGTTCCGCCTTTTCTCCATTTTCAGACCCCGTTGCAGCAGCAGCCATCGTCTTCA
58004469 TCGACTTAAACGTTCGACGGCTGG
196 TCGACTTAAACGTTCGACGGCTGG
*
58004493 TCGCTGTTCTATATCGAAACCTAGTCAAGTCATTGGAATCCTCTGTTTCAACCACATTGTGGACT
1 TCGCTGTTCTATATCGAAACCTAGGCAAGTCATTGGAATCCTCTGTTTCAACCACATTGTGGACT
* * * * *
58004558 TTCCCTTTGTCCAGTTCCATGTCTATCCTTTTGCTTCTGTATGTCCGCCGTGAGTTTGGCCACTC
66 TCCCCTTCGTCCAGTTCCATGTCTATCATTTTGCTTCTGTATATCCGCCGTGAGTTTGGACACTC
* * *
58004623 ATTGACTCTGGGTTTCGCCTTTTCTCCATTTTCAGACCCTGTTGCAGCAGCAGCCAT
131 ATTGACACTGGGTTCCGCCTTTTCTCCATTTTCAGACCCCGTTGCAGCAGCAGCCAT
58004680 TGGTTGAACC
Statistics
Matches: 173, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
219 173 1.00
ACGTcount: A:0.17, C:0.28, G:0.19, T:0.35
Consensus pattern (219 bp):
TCGCTGTTCTATATCGAAACCTAGGCAAGTCATTGGAATCCTCTGTTTCAACCACATTGTGGACT
TCCCCTTCGTCCAGTTCCATGTCTATCATTTTGCTTCTGTATATCCGCCGTGAGTTTGGACACTC
ATTGACACTGGGTTCCGCCTTTTCTCCATTTTCAGACCCCGTTGCAGCAGCAGCCATCGTCTTCA
TCGACTTAAACGTTCGACGGCTGG
Found at i:58005415 original size:11 final size:12
Alignment explanation
Indices: 58005401--58005429 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
58005391 TTAAATAATA
58005401 ATTTAATA-TTT
1 ATTTAATATTTT
58005412 ATTTAATATTTT
1 ATTTAATATTTT
58005424 ATTTAA
1 ATTTAA
58005430 AATAATTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 8 0.47
12 9 0.53
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
ATTTAATATTTT
Found at i:58006114 original size:54 final size:54
Alignment explanation
Indices: 58006047--58006225 Score: 171
Period size: 55 Copynumber: 3.2 Consensus size: 54
58006037 TAATTATTTT
* *
58006047 TATGTTTAGATCGATTGTTAGGTCGGAATGCTGCTTATTTTG-ATAGATTGTTTA
1 TATGTTTAAATCGATTGTTAGGT-GGAATGCTGCTTATTTTGAATTGATTGTTTA
* * *
58006101 TATGTTTAAATCGATTGTTATGGTGGAATACTGCTTCTTCTTTTGAATTGATTGTGTA
1 TATGTTTAAATCGATTGTTA-GGTGG-A-A-TGCTGCTTATTTTGAATTGATTGTTTA
* * ** * * * **
58006159 TATGTTTAGATGGATTGTTATATTGGAATACTGGTTGTTTTGAATTGATAATTTA
1 TATGTTTAAATCGATTGTTA-GGTGGAATGCTGCTTATTTTGAATTGATTGTTTA
58006214 TATGTTTAAATC
1 TATGTTTAAATC
58006226 CATTATTACG
Statistics
Matches: 102, Mismatches: 18, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
54 21 0.21
55 34 0.33
56 2 0.02
57 13 0.13
58 32 0.31
ACGTcount: A:0.25, C:0.06, G:0.21, T:0.48
Consensus pattern (54 bp):
TATGTTTAAATCGATTGTTAGGTGGAATGCTGCTTATTTTGAATTGATTGTTTA
Found at i:58006175 original size:58 final size:57
Alignment explanation
Indices: 58006047--58006191 Score: 172
Period size: 58 Copynumber: 2.6 Consensus size: 57
58006037 TAATTATTTT
*
58006047 TATGTTTAGATCGATTGTTA-GGTCGG-A-A-TGCTGCTTATTTTGATAGATTGTTTA
1 TATGTTTAGATCGATTGTTATGGT-GGAATACTGCTGCTTATTTTGATAGATTGTGTA
* * * *
58006101 TATGTTTAAATCGATTGTTATGGTGGAATACTGCTTCTTCTTTTGAATTGATTGTGTA
1 TATGTTTAGATCGATTGTTATGGTGGAATACTGCTGCTTATTTTG-ATAGATTGTGTA
* **
58006159 TATGTTTAGATGGATTGTTATATTGGAATACTG
1 TATGTTTAGATCGATTGTTATGGTGGAATACTG
58006192 GTTGTTTTGA
Statistics
Matches: 77, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
54 21 0.27
55 4 0.05
56 1 0.01
57 12 0.16
58 39 0.51
ACGTcount: A:0.23, C:0.07, G:0.23, T:0.47
Consensus pattern (57 bp):
TATGTTTAGATCGATTGTTATGGTGGAATACTGCTGCTTATTTTGATAGATTGTGTA
Found at i:58007857 original size:9 final size:9
Alignment explanation
Indices: 58007845--58007905 Score: 95
Period size: 9 Copynumber: 6.8 Consensus size: 9
58007835 TTTGGTTAAA
58007845 AATTAACCG
1 AATTAACCG
58007854 AATTAACCG
1 AATTAACCG
*
58007863 AATTACCCG
1 AATTAACCG
*
58007872 AATTACCCG
1 AATTAACCG
58007881 AATTAACCG
1 AATTAACCG
*
58007890 AATTACCCG
1 AATTAACCG
58007899 AATTAAC
1 AATTAAC
58007906 TAATTTGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 48 1.00
ACGTcount: A:0.41, C:0.26, G:0.10, T:0.23
Consensus pattern (9 bp):
AATTAACCG
Found at i:58007883 original size:27 final size:27
Alignment explanation
Indices: 58007845--58007905 Score: 113
Period size: 27 Copynumber: 2.3 Consensus size: 27
58007835 TTTGGTTAAA
58007845 AATTAACCGAATTAACCGAATTACCCG
1 AATTAACCGAATTAACCGAATTACCCG
*
58007872 AATTACCCGAATTAACCGAATTACCCG
1 AATTAACCGAATTAACCGAATTACCCG
58007899 AATTAAC
1 AATTAAC
58007906 TAATTTGAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.41, C:0.26, G:0.10, T:0.23
Consensus pattern (27 bp):
AATTAACCGAATTAACCGAATTACCCG
Found at i:58010077 original size:18 final size:19
Alignment explanation
Indices: 58010044--58010080 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
58010034 AATAATTTTT
*
58010044 AAAATTTTAAATATTTATA
1 AAAATTCTAAATATTTATA
58010063 AAAATTCTAAA-ATTTATA
1 AAAATTCTAAATATTTATA
58010081 TTTTAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (19 bp):
AAAATTCTAAATATTTATA
Found at i:58010085 original size:25 final size:27
Alignment explanation
Indices: 58010043--58010099 Score: 73
Period size: 25 Copynumber: 2.2 Consensus size: 27
58010033 AAATAATTTT
* *
58010043 TAAAATTTTAAATATTTATAAAAATTC
1 TAAAATTTTAAATATTTAAAAAAATTA
*
58010070 TAAAA-TTTATAT-TTTAAAAAAATTA
1 TAAAATTTTAAATATTTAAAAAAATTA
58010095 TAAAA
1 TAAAA
58010100 ACTAAAAACA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 16 0.59
26 6 0.22
27 5 0.19
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (27 bp):
TAAAATTTTAAATATTTAAAAAAATTA
Found at i:58015141 original size:27 final size:27
Alignment explanation
Indices: 58015103--58015162 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
58015093 GATATTTATA
*
58015103 TATGCTAAGAGAACATTGTAAAGTTCT
1 TATGCTAAGAGAACATTATAAAGTTCT
58015130 TATGCTAAGAGAACATTATAAAGTTCT
1 TATGCTAAGAGAACATTATAAAGTTCT
58015157 TATGCT
1 TATGCT
58015163 TGTTTAAGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.35
Consensus pattern (27 bp):
TATGCTAAGAGAACATTATAAAGTTCT
Found at i:58017852 original size:34 final size:35
Alignment explanation
Indices: 58017812--58017885 Score: 98
Period size: 34 Copynumber: 2.1 Consensus size: 35
58017802 AGCATATATT
* *
58017812 TATACTTATCAAT-TACATGTGCCGAATGCA-CATA
1 TATACTTAT-AATCCACATATGCCGAATGCAGCATA
58017846 TATACTTATAATCCACATATGCCGAATGCATGCATA
1 TATACTTATAATCCACATATGCCGAATGCA-GCATA
58017882 TATA
1 TATA
58017886 TATCCAACAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
33 3 0.09
34 24 0.69
36 8 0.23
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.32
Consensus pattern (35 bp):
TATACTTATAATCCACATATGCCGAATGCAGCATA
Found at i:58018102 original size:41 final size:40
Alignment explanation
Indices: 58018057--58018289 Score: 315
Period size: 41 Copynumber: 5.7 Consensus size: 40
58018047 TTAAATAGAT
*
58018057 TCACCGGCACTTAGCCTGTTAGGCTTAAAGCCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTAAA-CCTGATTCAGA
*
58018098 TCACCGACACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTA-AACCTGATTCAGA
* *
58018139 TCACCGGCACTTAGCCTGTTAGGCTTATAGCCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTA-AACCTGATTCAGA
*
58018180 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGGTTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTA-AACCTGATTCAGA
*
58018221 TCACCGGCACTTAGCCTGCTAGGTTTTAAAACCTGATTCAG-
1 TCACCGGCACTTAGCCTGCTAGG-CTT-AAACCTGATTCAGA
** *
58018262 TACACCGGCTTTTAGCCTGCTAGACTTA
1 T-CACCGGCACTTAGCCTGCTAGGCTTA
58018290 TAGTCCGAAA
Statistics
Matches: 174, Mismatches: 14, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
40 1 0.01
41 138 0.79
42 34 0.20
43 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (40 bp):
TCACCGGCACTTAGCCTGCTAGGCTTAAACCTGATTCAGA
Found at i:58018194 original size:82 final size:82
Alignment explanation
Indices: 58018057--58018291 Score: 364
Period size: 82 Copynumber: 2.9 Consensus size: 82
58018047 TTAAATAGAT
*
58018057 TCACCGGCACTTAGCCTGTTAGGCTTAAAGCCTGATTCAGATCACCGACACTTAGCCTGCTAGGC
1 TCACCGGCACTTAGCCTGTTAGGCTTAAAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGGC
58018122 TTATAACCTGATTCAGA
66 TTATAACCTGATTCAGA
*
58018139 TCACCGGCACTTAGCCTGTTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGGC
1 TCACCGGCACTTAGCCTGTTAGGCTTAAAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGGC
*
58018204 TTATAACCTGGTTCAGA
66 TTATAACCTGATTCAGA
* * * **
58018221 TCACCGGCACTTAGCCTGCTAGGTTTTAAAACCTGATTCAG-TACACCGGCTTTTAGCCTGCTAG
1 TCACCGGCACTTAGCCTGTTAGG-CTTAAAGCCTGATTCAGAT-CACCGGCACTTAGCCTGCTAG
*
58018285 ACTTATA
64 GCTTATA
58018292 GTCCGAAATG
Statistics
Matches: 141, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
82 102 0.72
83 39 0.28
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.29
Consensus pattern (82 bp):
TCACCGGCACTTAGCCTGTTAGGCTTAAAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGGC
TTATAACCTGATTCAGA
Found at i:58019100 original size:68 final size:69
Alignment explanation
Indices: 58019027--58019173 Score: 240
Period size: 72 Copynumber: 2.1 Consensus size: 69
58019017 GTATATACAC
*
58019027 ATATATCCGAACTTTATATATATAAATATAACATACATACTTTTAACTAAATTCAAGAATTTATT
1 ATATATCCGAACTTTATATATATAAATATAACATACATAATTTTAACTAAATTCAAGAATTTATT
58019092 CATG
66 CATG
*
58019096 TATATATATCTGAACTTTATATATATAAATATAACATACATAATTTTAACTAAATTCAAGAATTT
1 ---ATATATCCGAACTTTATATATATAAATATAACATACATAATTTTAACTAAATTCAAGAATTT
58019161 ATTCATG
63 ATTCATG
58019168 TATATA
1 -ATATA
58019174 CATATATATA
Statistics
Matches: 73, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
70 6 0.08
72 67 0.92
ACGTcount: A:0.44, C:0.11, G:0.04, T:0.41
Consensus pattern (69 bp):
ATATATCCGAACTTTATATATATAAATATAACATACATAATTTTAACTAAATTCAAGAATTTATT
CATG
Found at i:58019361 original size:80 final size:78
Alignment explanation
Indices: 58018992--58019346 Score: 537
Period size: 80 Copynumber: 4.6 Consensus size: 78
58018982 ACATTCAACA
* *
58018992 TTAACTAAATTCAA-AACTTATTCATGTATATACACATA-TATCCGAACTTTATATATATAAATA
1 TTAACTAAATTCAAGAATTTATTCATGTATATACATATATTATCC-AACTTTATATATATAAATA
58019055 TAACATACATACTT
65 TAACATACATACTT
* *
58019069 TTAACTAAATTCAAGAATTTATTCATG--TAT--ATATA-TCT-GAACTTTATATATATAAATAT
1 TTAACTAAATTCAAGAATTTATTCATGTATATACATATATTATCCAACTTTATATATATAAATAT
*
58019128 AACATACATAATT
66 AACATACATACTT
58019141 TTAACTAAATTCAAGAATTTATTCATGTATATACATATATATATCCGAACTTTATATATATAAAT
1 TTAACTAAATTCAAGAATTTATTCATGTATATACATATAT-TATCC-AACTTTATATATATAAAT
58019206 ATAACATACATACTT
64 ATAACATACATACTT
58019221 TTAACTAAATTCAAGAATTTATTCATGTATATACATATATATATCCGAACTTTATATATATAAAT
1 TTAACTAAATTCAAGAATTTATTCATGTATATACATATAT-TATCC-AACTTTATATATATAAAT
58019286 ATAACATACATACTT
64 ATAACATACATACTT
* * *
58019301 TTAACTAAATTCAAGAACTTATACATCTATATACATATATTATCCA
1 TTAACTAAATTCAAGAATTTATTCATGTATATACATATATTATCCA
58019347 CTATTAGTTC
Statistics
Matches: 258, Mismatches: 11, Indels: 17
0.90 0.04 0.06
Matches are distributed among these distances:
72 59 0.23
74 9 0.03
76 8 0.03
77 14 0.05
78 14 0.05
79 5 0.02
80 149 0.58
ACGTcount: A:0.44, C:0.13, G:0.03, T:0.39
Consensus pattern (78 bp):
TTAACTAAATTCAAGAATTTATTCATGTATATACATATATTATCCAACTTTATATATATAAATAT
AACATACATACTT
Found at i:58039448 original size:15 final size:17
Alignment explanation
Indices: 58039428--58039464 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
58039418 ATATCAAAAA
58039428 ATAATA-TTAAA-AATC
1 ATAATACTTAAATAATC
*
58039443 ATAATACTTAAATAATT
1 ATAATACTTAAATAATC
58039460 ATAAT
1 ATAAT
58039465 TCCATTATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 6 0.32
16 5 0.26
17 8 0.42
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (17 bp):
ATAATACTTAAATAATC
Found at i:58041459 original size:18 final size:19
Alignment explanation
Indices: 58041416--58041461 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
58041406 ATGTCAAAAT
58041416 TTTATA-TTTAATTTATTA
1 TTTATATTTTAATTTATTA
*
58041434 TTTTTATTTTAATTTGA-TA
1 TTTATATTTTAATTT-ATTA
58041453 -TTATATTTT
1 TTTATATTTT
58041462 TATAATGTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 13 0.54
19 10 0.42
20 1 0.04
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (19 bp):
TTTATATTTTAATTTATTA
Found at i:58041459 original size:24 final size:25
Alignment explanation
Indices: 58041414--58041464 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
58041404 ATATGTCAAA
58041414 ATTTTATATTTAATTTATTATTTTT
1 ATTTTATATTTAATTTATTATTTTT
*
58041439 ATTTTA-ATTTGATATTA-TATTTTT
1 ATTTTATATTTAAT-TTATTATTTTT
58041463 AT
1 AT
58041465 AATGTTATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 15 0.62
25 9 0.38
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (25 bp):
ATTTTATATTTAATTTATTATTTTT
Found at i:58045593 original size:33 final size:32
Alignment explanation
Indices: 58045542--58045701 Score: 96
Period size: 33 Copynumber: 4.8 Consensus size: 32
58045532 TTGTCTGTTA
*
58045542 TCGGTGGATTCAGCACTTAGCAACCACTAGTGAT
1 TCGG-GGAATCAGCACTTAGCAACCACTA-TGAT
*
58045576 TCGGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGAT
1 TCGGGGAATCAGCACTTAGCAA---C---CAC---TATGAT
* * * * *
58045617 ACGGTGGGATTAGCACTTAGCAACCACCAATGAG
1 TCGG-GGAATCAGCACTTAGCAACCA-CTATGAT
*
58045651 TCGGGGAATCAGCACTTAGCAACCCCT-TG--
1 TCGGGGAATCAGCACTTAGCAACCACTATGAT
58045680 --GGGGAATCAGCACTTAGCAACC
1 TCGGGGAATCAGCACTTAGCAACC
58045702 CCCTTCACAT
Statistics
Matches: 102, Mismatches: 13, Indels: 29
0.71 0.09 0.20
Matches are distributed among these distances:
27 22 0.22
31 2 0.02
32 1 0.01
33 35 0.34
34 10 0.10
36 3 0.03
37 1 0.01
39 4 0.04
41 6 0.06
42 18 0.18
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.22
Consensus pattern (32 bp):
TCGGGGAATCAGCACTTAGCAACCACTATGAT
Found at i:58045697 original size:102 final size:102
Alignment explanation
Indices: 58045578--58045778 Score: 339
Period size: 102 Copynumber: 2.0 Consensus size: 102
58045568 CTAGTGATTC
* * * *
58045578 GGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGGATTAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
*
58045643 CCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTG
66 CCAATGAGTCGGGAAATCAGCACTTAGCAACCCCTTG
*
58045680 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCAGTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
*
58045745 CCAATGATTCGGGAAATCAGCACTTAGCAACCCC
66 CCAATGAGTCGGGAAATCAGCACTTAGCAACCCC
58045779 CTTTATATTC
Statistics
Matches: 92, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
102 92 1.00
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.20
Consensus pattern (102 bp):
GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
CCAATGAGTCGGGAAATCAGCACTTAGCAACCCCTTG
Found at i:58047495 original size:57 final size:57
Alignment explanation
Indices: 58047407--58047514 Score: 207
Period size: 57 Copynumber: 1.9 Consensus size: 57
58047397 AGCAGAACGG
*
58047407 AAACATCGACATATTGTTGAGGTCAGTTTTATGCTTTTTGCTCAAGCAAATGAACAA
1 AAACATCGACATATTATTGAGGTCAGTTTTATGCTTTTTGCTCAAGCAAATGAACAA
58047464 AAACATCGACATATTATTGAGGTCAGTTTTATGCTTTTTGCTCAAGCAAAT
1 AAACATCGACATATTATTGAGGTCAGTTTTATGCTTTTTGCTCAAGCAAAT
58047515 CTGCCATTGA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 50 1.00
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Consensus pattern (57 bp):
AAACATCGACATATTATTGAGGTCAGTTTTATGCTTTTTGCTCAAGCAAATGAACAA
Found at i:58056739 original size:20 final size:19
Alignment explanation
Indices: 58056714--58056754 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
58056704 AAATTAAGAG
58056714 TTATTT-TTTAATTTCATGTA
1 TTATTTATTT-ATTTCAT-TA
58056734 TTATTTATTTATTTCATTA
1 TTATTTATTTATTTCATTA
58056753 TT
1 TT
58056755 TTTCACATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 4 0.20
20 13 0.65
21 3 0.15
ACGTcount: A:0.24, C:0.05, G:0.02, T:0.68
Consensus pattern (19 bp):
TTATTTATTTATTTCATTA
Found at i:58057485 original size:19 final size:18
Alignment explanation
Indices: 58057461--58057509 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 18
58057451 TAAAGGGTGA
58057461 GAAATAAAAGTTTTTGGGG
1 GAAATAAAAGTTTTT-GGG
58057480 GAAATAAAAAG-TTTTGGG
1 GAAAT-AAAAGTTTTTGGG
58057498 G-AATAAAAGTTT
1 GAAATAAAAGTTT
58057510 GAGGGAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
16 5 0.18
17 5 0.18
18 4 0.14
19 9 0.32
20 5 0.18
ACGTcount: A:0.43, C:0.00, G:0.27, T:0.31
Consensus pattern (18 bp):
GAAATAAAAGTTTTTGGG
Found at i:58057640 original size:30 final size:31
Alignment explanation
Indices: 58057601--58057660 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
58057591 AGAGGTGGGA
*
58057601 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
58057632 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
58057661 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:58057768 original size:5 final size:5
Alignment explanation
Indices: 58057758--58057782 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
58057748 TTGGGGGGTT
58057758 GGGAG GGGAG GGGAG GGGAG GGGAG
1 GGGAG GGGAG GGGAG GGGAG GGGAG
58057783 TAAAAGTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.80, T:0.00
Consensus pattern (5 bp):
GGGAG
Found at i:58059811 original size:46 final size:46
Alignment explanation
Indices: 58059755--58059847 Score: 159
Period size: 46 Copynumber: 2.0 Consensus size: 46
58059745 TATAAGTGTA
* * *
58059755 TAGATATGGCTTAGTATTTGATATCAATGAAACTTTTATATATGTG
1 TAGATATGGCTTAATATTTAATATCAATAAAACTTTTATATATGTG
58059801 TAGATATGGCTTAATATTTAATATCAATAAAACTTTTATATATGTG
1 TAGATATGGCTTAATATTTAATATCAATAAAACTTTTATATATGTG
58059847 T
1 T
58059848 TGATGTGTCA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.35, C:0.06, G:0.14, T:0.44
Consensus pattern (46 bp):
TAGATATGGCTTAATATTTAATATCAATAAAACTTTTATATATGTG
Found at i:58060917 original size:5 final size:5
Alignment explanation
Indices: 58060909--58060957 Score: 98
Period size: 5 Copynumber: 9.8 Consensus size: 5
58060899 TCAAGTCAAG
58060909 TCGAA TCGAA TCGAA TCGAA TCGAA TCGAA TCGAA TCGAA TCGAA TCGA
1 TCGAA TCGAA TCGAA TCGAA TCGAA TCGAA TCGAA TCGAA TCGAA TCGA
58060958 GTGAAATTGT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 44 1.00
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.20
Consensus pattern (5 bp):
TCGAA
Found at i:58067807 original size:28 final size:26
Alignment explanation
Indices: 58067774--58067833 Score: 95
Period size: 25 Copynumber: 2.3 Consensus size: 26
58067764 AAAATTTATC
58067774 AAAATATTATAACTTTTTTTTATTTACG
1 AAAATATT-T-ACTTTTTTTTATTTACG
58067802 AAAATA-TTACTTTTTTTTATTTACG
1 AAAATATTTACTTTTTTTTATTTACG
58067827 AAAATAT
1 AAAATAT
58067834 ACCAAAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
25 23 0.74
26 1 0.03
27 1 0.03
28 6 0.19
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.52
Consensus pattern (26 bp):
AAAATATTTACTTTTTTTTATTTACG
Found at i:58067819 original size:25 final size:25
Alignment explanation
Indices: 58067785--58067833 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
58067775 AAATATTATA
58067785 ACTTTTTTTTATTTACGAAAATATT
1 ACTTTTTTTTATTTACGAAAATATT
58067810 ACTTTTTTTTATTTACGAAAATAT
1 ACTTTTTTTTATTTACGAAAATAT
58067834 ACCAAAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.33, C:0.08, G:0.04, T:0.55
Consensus pattern (25 bp):
ACTTTTTTTTATTTACGAAAATATT
Found at i:58067971 original size:27 final size:27
Alignment explanation
Indices: 58067901--58067974 Score: 96
Period size: 27 Copynumber: 2.7 Consensus size: 27
58067891 ACTGGGTCAG
* *
58067901 GCCAATGCCATTGGCAGCACCAATGGT
1 GCCAATACCATTGGCGGCACCAATGGT
*
58067928 GCCAATACCATTAGCGGCACCAATGGT
1 GCCAATACCATTGGCGGCACCAATGGT
*
58067955 GCC-ATACTGATTGGCGGCAC
1 GCCAATAC-CATTGGCGGCAC
58067975 TACTCGTATT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
26 4 0.10
27 37 0.90
ACGTcount: A:0.26, C:0.30, G:0.26, T:0.19
Consensus pattern (27 bp):
GCCAATACCATTGGCGGCACCAATGGT
Found at i:58068216 original size:3 final size:3
Alignment explanation
Indices: 58068210--58068244 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
58068200 AGTATTATTA
58068210 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
58068245 AGTATTAAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:58071380 original size:11 final size:11
Alignment explanation
Indices: 58071364--58071390 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
58071354 GCTTATGCTT
58071364 AAATTGTATCC
1 AAATTGTATCC
58071375 AAATTGTATCC
1 AAATTGTATCC
58071386 AAATT
1 AAATT
58071391 AAGTTATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.41, C:0.15, G:0.07, T:0.37
Consensus pattern (11 bp):
AAATTGTATCC
Found at i:58074480 original size:24 final size:25
Alignment explanation
Indices: 58074453--58074539 Score: 83
Period size: 26 Copynumber: 3.4 Consensus size: 25
58074443 ATGTACATAT
58074453 CATAACA-AAAATACGTATAATGTA
1 CATAACATAAAATACGTATAATGTA
58074477 CATAACATCAAAATA--TAT-ATGCTA
1 CATAACAT-AAAATACGTATAATG-TA
* *
58074501 AATAAAATATTAAAATACGTATAATGTA
1 CAT--AACA-TAAAATACGTATAATGTA
58074529 CATAACATAAA
1 CATAACATAAA
58074540 TTTTTAACAT
Statistics
Matches: 50, Mismatches: 4, Indels: 17
0.70 0.06 0.24
Matches are distributed among these distances:
23 3 0.06
24 14 0.28
25 4 0.08
26 18 0.36
27 1 0.02
28 7 0.14
29 3 0.06
ACGTcount: A:0.55, C:0.11, G:0.06, T:0.28
Consensus pattern (25 bp):
CATAACATAAAATACGTATAATGTA
Found at i:58074634 original size:21 final size:21
Alignment explanation
Indices: 58074608--58074673 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
58074598 CCTTGCTTCC
58074608 CTCTTCTTCTTCTTTTTTTTT
1 CTCTTCTTCTTCTTTTTTTTT
* * *
58074629 CTCTTCTCCTTTCCTTTTCTTT
1 CTCTTCTTC-TTCTTTTTTTTT
*
58074651 C-CTTCTTTTTCTTTCTTTTTT
1 CTCTTCTTCTTCTTT-TTTTTT
58074672 CT
1 CT
58074674 TCTCCTTTCC
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
20 5 0.14
21 19 0.54
22 11 0.31
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (21 bp):
CTCTTCTTCTTCTTTTTTTTT
Found at i:58074635 original size:18 final size:17
Alignment explanation
Indices: 58074614--58074744 Score: 75
Period size: 18 Copynumber: 7.2 Consensus size: 17
58074604 TTCCCTCTTC
58074614 TTCTTCTTTTTTTTTCT
1 TTCTTCTTTTTTTTTCT
* **
58074631 CTTCTCCTTTCCTTTTCT
1 -TTCTTCTTTTTTTTTCT
*
58074649 TTCCTTCTTTTTCTTTCT
1 TT-CTTCTTTTTTTTTCT
*
58074667 TTTTTCTTCTCCTTTCCTCTTC-
1 TTCTTCTT-T--TTT--T-TTCT
*
58074689 TTCTTCTTTCTTTTTTTT
1 TTCTTCTTT-TTTTTTCT
* **
58074707 TTCTCCTTTCCTTTTCT
1 TTCTTCTTTTTTTTTCT
*
58074724 TTCCTTCTTTTTCTTTCT
1 TT-CTTCTTTTTTTTTCT
58074742 TTC
1 TTC
58074745 CTCTCCTTCC
Statistics
Matches: 85, Mismatches: 19, Indels: 19
0.69 0.15 0.15
Matches are distributed among these distances:
17 17 0.20
18 50 0.59
20 6 0.07
21 1 0.01
22 8 0.09
23 3 0.04
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (17 bp):
TTCTTCTTTTTTTTTCT
Found at i:58074656 original size:36 final size:36
Alignment explanation
Indices: 58074616--58074741 Score: 141
Period size: 41 Copynumber: 3.4 Consensus size: 36
58074606 CCCTCTTCTT
58074616 CTTCTTTTTTTTTCTCTTCTCCTTTCCTTTTCTTTC
1 CTTCTTTTTTTTTCTCTTCTCCTTTCCTTTTCTTTC
* *
58074652 CTTCTTTTTCTTTCTTTTTTCTTCTCCTTTCCTCTTC-TT-
1 CTTC---TT-TTT-TTTTCTCTTCTCCTTTCCTTTTCTTTC
*
58074691 CTTCTTTCTTTTTT-TTTTCTCCTTTCCTTTTCTTTC
1 CTTCTTT-TTTTTTCTCTTCTCCTTTCCTTTTCTTTC
*
58074727 CTTCTTTTTCTTTCT
1 CTTCTTTTTTTTTCT
58074742 TTCCTCTCCT
Statistics
Matches: 76, Mismatches: 5, Indels: 18
0.77 0.05 0.18
Matches are distributed among these distances:
34 16 0.21
35 12 0.16
36 16 0.21
39 6 0.08
40 5 0.07
41 21 0.28
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (36 bp):
CTTCTTTTTTTTTCTCTTCTCCTTTCCTTTTCTTTC
Found at i:58074658 original size:13 final size:13
Alignment explanation
Indices: 58074642--58074779 Score: 71
Period size: 14 Copynumber: 10.8 Consensus size: 13
58074632 TTCTCCTTTC
58074642 CTTTTCTTTCCTT
1 CTTTTCTTTCCTT
58074655 CTTTTTCTTT-CTT
1 C-TTTTCTTTCCTT
58074668 -TTTTCTTCTCCTTT
1 CTTTTCTT-TCC-TT
*
58074682 CCTCTTC-TT-CTT
1 -CTTTTCTTTCCTT
58074694 C-TTTCTTT--TT
1 CTTTTCTTTCCTT
*
58074704 -TTTT-TCTCCTTT
1 CTTTTCTTTCC-TT
58074716 CCTTTTCTTTCCTT
1 -CTTTTCTTTCCTT
*
58074730 CTTTTTCTTTCTTT
1 C-TTTTCTTTCCTT
* * *
58074744 CCTCTCCTTCCTT
1 CTTTTCTTTCCTT
* *
58074757 CCTTTCTTTCTTT
1 CTTTTCTTTCCTT
58074770 C-TTTCTTTCC
1 CTTTTCTTTCC
58074780 CTCTCCTTCT
Statistics
Matches: 97, Mismatches: 13, Indels: 31
0.69 0.09 0.22
Matches are distributed among these distances:
9 2 0.02
10 8 0.08
11 10 0.10
12 13 0.13
13 26 0.27
14 29 0.30
15 5 0.05
16 4 0.04
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (13 bp):
CTTTTCTTTCCTT
Found at i:58074665 original size:4 final size:4
Alignment explanation
Indices: 58074644--58074778 Score: 72
Period size: 4 Copynumber: 34.0 Consensus size: 4
58074634 CTCCTTTCCT
*
58074644 TTTC TTTC CTTC -TT- TTTC TTTC TTT- TTTC TTCTCC TTTCC TCTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT-T-C TTT-C T-TTC
* * *
58074689 -TTC -TTC TTTC TTT- TTTT TTTC -TCC TTTCC TTTTC TTTC CTTC -TT-
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTT-C -TTTC TTTC TTTC TTTC
* * *
58074733 TTTC TTTC TTTCC TCTCC TTCC TTCC TTTC TTTC TTTC TTTC TTTC
1 TTTC TTTC TTT-C T-TTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
58074779 CCTCTCCTTC
Statistics
Matches: 109, Mismatches: 7, Indels: 30
0.75 0.05 0.21
Matches are distributed among these distances:
3 22 0.20
4 66 0.61
5 12 0.11
6 9 0.08
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (4 bp):
TTTC
Found at i:58074703 original size:75 final size:75
Alignment explanation
Indices: 58074597--58074777 Score: 249
Period size: 75 Copynumber: 2.4 Consensus size: 75
58074587 TACCTTCTTT
* *
58074597 TCCTTGCTTCCCTCTTCTTCTTCTTTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCCTTCTTTTTC
1 TCCTTCCTT-CCTCTTCTTCTTCTTTCTTTTTCTCTTCTCCTTTCCTTTTCTTTCCTTCTTTTTC
**
58074662 TTTCTTTTTTC
65 TTTCTTTCCTC
* * *
58074673 TTC-TCCTTTCCTCTTCTTCTTCTTTCTTTTTTTTTTCTCCTTTCCTTTTCTTTCCTTCTTTTTC
1 TCCTTCC-TTCCTCTTCTTCTTCTTTCTTTTTCTCTTCTCCTTTCCTTTTCTTTCCTTCTTTTTC
58074737 TTTCTTTCCTC
65 TTTCTTTCCTC
58074748 TCCTTCCTTCCT-TTCTTTCTTTCTTTCTTT
1 TCCTTCCTTCCTCTTC-TTC-TTCTTTCTTT
58074778 CCCTCTCCTT
Statistics
Matches: 93, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
74 3 0.03
75 73 0.78
76 17 0.18
ACGTcount: A:0.00, C:0.32, G:0.01, T:0.67
Consensus pattern (75 bp):
TCCTTCCTTCCTCTTCTTCTTCTTTCTTTTTCTCTTCTCCTTTCCTTTTCTTTCCTTCTTTTTCT
TTCTTTCCTC
Found at i:58074727 original size:10 final size:9
Alignment explanation
Indices: 58074611--58074778 Score: 54
Period size: 10 Copynumber: 18.3 Consensus size: 9
58074601 TGCTTCCCTC
58074611 TTCTTCTTCT
1 TTCTT-TTCT
58074621 TT-TTTT-T
1 TTCTTTTCT
*
58074628 TCTCTTCTCCT
1 T-TCTT-TTCT
58074639 TTCCTTTTCT
1 TT-CTTTTCT
58074649 TTCCTTCTT-T
1 TT-CTT-TTCT
58074659 TTC-TTTC-
1 TTCTTTTCT
58074666 TT-TTTTCT
1 TTCTTTTCT
*
58074674 TCTCCTTTCCT
1 T-T-CTTTTCT
58074685 CTTCTTCTTCT
1 -TTCTT-TTCT
58074696 TTCTTTT-T
1 TTCTTTTCT
58074704 TT-TTTCTCCT
1 TTCTTT-T-CT
58074714 TTCCTTTTCT
1 TT-CTTTTCT
58074724 TTCCTTCTT-T
1 TT-CTT-TTCT
58074734 TTC-TTTCT
1 TTCTTTTCT
* * *
58074742 TTCCTCTCC
1 TTCTTTTCT
* *
58074751 TTCCTTCCT
1 TTCTTTTCT
58074760 TTC-TTTCT
1 TTCTTTTCT
58074768 TTC-TTTCT
1 TTCTTTTCT
58074776 TTC
1 TTC
58074779 CCTCTCCTTC
Statistics
Matches: 126, Mismatches: 10, Indels: 46
0.69 0.05 0.25
Matches are distributed among these distances:
7 15 0.12
8 29 0.23
9 21 0.17
10 38 0.30
11 19 0.15
12 4 0.03
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (9 bp):
TTCTTTTCT
Found at i:58074909 original size:10 final size:10
Alignment explanation
Indices: 58074894--58074933 Score: 55
Period size: 10 Copynumber: 4.1 Consensus size: 10
58074884 CCTCGTTCGG
58074894 TGCAGCCTTT
1 TGCAGCCTTT
58074904 TGCAGCCTTT
1 TGCAGCCTTT
*
58074914 TGCAGGCTTT
1 TGCAGCCTTT
*
58074924 TTCAG-CTTT
1 TGCAGCCTTT
58074933 T
1 T
58074934 TTTTGTTTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
9 5 0.18
10 23 0.82
ACGTcount: A:0.10, C:0.25, G:0.20, T:0.45
Consensus pattern (10 bp):
TGCAGCCTTT
Found at i:58074976 original size:23 final size:24
Alignment explanation
Indices: 58074950--58075011 Score: 99
Period size: 23 Copynumber: 2.6 Consensus size: 24
58074940 TTGTTTTGGT
58074950 ATATTTTGGTAATTAAAAAA-ATA
1 ATATTTTGGTAATTAAAAAAGATA
*
58074973 ATATTTTGGTAAATAAAAAAGGATA
1 ATATTTTGGTAATTAAAAAA-GATA
58074998 ATATTTTGGTAATT
1 ATATTTTGGTAATT
58075012 TTAATTTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
23 19 0.54
25 16 0.46
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.40
Consensus pattern (24 bp):
ATATTTTGGTAATTAAAAAAGATA
Found at i:58081117 original size:34 final size:34
Alignment explanation
Indices: 58081078--58081150 Score: 146
Period size: 34 Copynumber: 2.1 Consensus size: 34
58081068 CAAATGATAG
58081078 TGTTAATTATTTCCATTAATACATGACATGTATA
1 TGTTAATTATTTCCATTAATACATGACATGTATA
58081112 TGTTAATTATTTCCATTAATACATGACATGTATA
1 TGTTAATTATTTCCATTAATACATGACATGTATA
58081146 TGTTA
1 TGTTA
58081151 TAAACTAGAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.34, C:0.11, G:0.10, T:0.45
Consensus pattern (34 bp):
TGTTAATTATTTCCATTAATACATGACATGTATA
Found at i:58085470 original size:28 final size:28
Alignment explanation
Indices: 58085430--58085507 Score: 138
Period size: 28 Copynumber: 2.8 Consensus size: 28
58085420 CTCACTCATT
*
58085430 TGTTAGAAAGAGTACGGAATCTAAGGAA
1 TGTTAGAAAGAGTACAGAATCTAAGGAA
58085458 TGTTAGAAAGAGTACAGAATCTAAGGAA
1 TGTTAGAAAGAGTACAGAATCTAAGGAA
*
58085486 TGTTAGAAAGAGTACACAATCT
1 TGTTAGAAAGAGTACAGAATCT
58085508 GTAAATAGAT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 48 1.00
ACGTcount: A:0.44, C:0.09, G:0.24, T:0.23
Consensus pattern (28 bp):
TGTTAGAAAGAGTACAGAATCTAAGGAA
Found at i:58085744 original size:138 final size:138
Alignment explanation
Indices: 58085493--58085770 Score: 538
Period size: 138 Copynumber: 2.0 Consensus size: 138
58085483 GAATGTTAGA
58085493 AAGAGTACACAATCTGTAAATAGATACAATTTCTGCTCTGCTATGGTTTCTATCCTTGCAGCTAA
1 AAGAGTACACAATCTGTAAATAGATACAATTTCTGCTCTGCTATGGTTTCTATCCTTGCAGCTAA
*
58085558 AAAGGATAACTTTTAGTTATTTCCCTCTCACATTTCTAAAGTTAACGTTTTCATCACTTATTTTT
66 AAAGGATAACTTTTAGTTATTTCCCTCTCACATTTCTAAAATTAACGTTTTCATCACTTATTTTT
58085623 GTCAAGTT
131 GTCAAGTT
58085631 AAGAGTACACAATCTGTAAATAGATACAATTTCTGCTCTGCTATGGTTTCTATCCTTGCAGCTAA
1 AAGAGTACACAATCTGTAAATAGATACAATTTCTGCTCTGCTATGGTTTCTATCCTTGCAGCTAA
*
58085696 AAAGGATAACTTTTAGTTATTTCCCTCTCACATTTCTAAAATTTACGTTTTCATCACTTATTTTT
66 AAAGGATAACTTTTAGTTATTTCCCTCTCACATTTCTAAAATTAACGTTTTCATCACTTATTTTT
58085761 GTCAAGTT
131 GTCAAGTT
58085769 AA
1 AA
58085771 CGTTTTCATC
Statistics
Matches: 138, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
138 138 1.00
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.40
Consensus pattern (138 bp):
AAGAGTACACAATCTGTAAATAGATACAATTTCTGCTCTGCTATGGTTTCTATCCTTGCAGCTAA
AAAGGATAACTTTTAGTTATTTCCCTCTCACATTTCTAAAATTAACGTTTTCATCACTTATTTTT
GTCAAGTT
Found at i:58088689 original size:19 final size:20
Alignment explanation
Indices: 58088662--58088700 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
58088652 AAAAAATTAA
58088662 TATTATTTTG-ATATTTTTT
1 TATTATTTTGAATATTTTTT
*
58088681 TATTTTTTTGTAATATTTTT
1 TATTATTTTG-AATATTTTT
58088701 ATAAAAGACC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
21 8 0.47
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (20 bp):
TATTATTTTGAATATTTTTT
Found at i:58093835 original size:23 final size:21
Alignment explanation
Indices: 58093809--58093853 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
58093799 AAATTGAAGG
*
58093809 ACCAAACTCTAATAAATTTTTAT
1 ACCAAA-TCT-ATAAATATTTAT
*
58093832 ACCAAATCTGTAAATATTTAT
1 ACCAAATCTATAAATATTTAT
58093853 A
1 A
58093854 TTTAATATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 11 0.55
22 3 0.15
23 6 0.30
ACGTcount: A:0.44, C:0.16, G:0.02, T:0.38
Consensus pattern (21 bp):
ACCAAATCTATAAATATTTAT
Found at i:58093978 original size:48 final size:48
Alignment explanation
Indices: 58093902--58093997 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 48
58093892 CAAAACCACC
58093902 TTTCCTGATACCACTAGAAATCGAGTTGTTACAACGATAACTTTTCTT
1 TTTCCTGATACCACTAGAAATCGAGTTGTTACAACGATAACTTTTCTT
*
58093950 TTTCCTGATACCACTAGAAATCGGGTTGTTACAACGATAACTTTTCTT
1 TTTCCTGATACCACTAGAAATCGAGTTGTTACAACGATAACTTTTCTT
58093998 ATCAAGTAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.38
Consensus pattern (48 bp):
TTTCCTGATACCACTAGAAATCGAGTTGTTACAACGATAACTTTTCTT
Found at i:58095368 original size:19 final size:19
Alignment explanation
Indices: 58095293--58095369 Score: 50
Period size: 19 Copynumber: 3.8 Consensus size: 19
58095283 TAAATTAGTT
58095293 AATTAAAATATGTTTTAAAAA
1 AATTAAAAT-TG-TTTAAAAA
* *
58095314 AATTATAA-CG-TTAATATTAA
1 AATTAAAATTGTTTAA-A--AA
* *
58095334 AATTTAAAAATATTTAAAAA
1 AA-TTAAAATTGTTTAAAAA
58095354 AATTAAAATTGTTTAA
1 AATTAAAATTGTTTAA
58095370 TTTTCAATTA
Statistics
Matches: 43, Mismatches: 7, Indels: 14
0.67 0.11 0.22
Matches are distributed among these distances:
17 4 0.09
18 1 0.02
19 13 0.30
20 8 0.19
21 12 0.28
22 1 0.02
23 4 0.09
ACGTcount: A:0.56, C:0.01, G:0.04, T:0.39
Consensus pattern (19 bp):
AATTAAAATTGTTTAAAAA
Found at i:58100411 original size:24 final size:24
Alignment explanation
Indices: 58100382--58100430 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
58100372 GGTAAACAAA
* *
58100382 TTGAAGCTAGAAGTTGAAATGATG
1 TTGAAGCTAGAAGCTGAAATAATG
*
58100406 TTGAAGCTTGAAGCTGAAATAATG
1 TTGAAGCTAGAAGCTGAAATAATG
58100430 T
1 T
58100431 AGCTGTTCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.37, C:0.06, G:0.27, T:0.31
Consensus pattern (24 bp):
TTGAAGCTAGAAGCTGAAATAATG
Found at i:58103409 original size:24 final size:22
Alignment explanation
Indices: 58103360--58103403 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
58103350 ACCCTTTCCA
58103360 TTATCAAATTTGCTATATATGC
1 TTATCAAATTTGCTATATATGC
58103382 TTATCAAATTTGCTATATATGC
1 TTATCAAATTTGCTATATATGC
58103404 ACTTATTGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.14, G:0.09, T:0.45
Consensus pattern (22 bp):
TTATCAAATTTGCTATATATGC
Found at i:58108338 original size:299 final size:301
Alignment explanation
Indices: 58107798--58108381 Score: 852
Period size: 299 Copynumber: 1.9 Consensus size: 301
58107788 ATAGGCCTTC
58107798 TCCAAATCTATCTTAATAACCATCCATATTTTGTGTTTGCTTCTCATGGAATAAATAACTTCTTG
1 TCCAAATCTATCTTAATAACCATCCATATTTTGTGTTTGCTTCTCATGGAATAAATAACTTCTTG
* * * *
58107863 GACGACTATGATATTGTTAGTGATGTTCCTTCCAGCAAAAAAACCCACCTATTCTAGGTCAATGA
66 GACGACTATGATATTGTTAGTGATATTACTTCCAGCAAAAAAACCCACATATTCTAGGCCAATGA
* * * * * *
58107928 TTCTAGGAAAAACAACCTTATATTTGTTCGGAATGGTATTTATGACTTGCATGTAAAGAACTGAA
131 TTCTAGGAAAAACAACCTTATATCTATTCAGAATGATATTTAGGACCTGCATGTAAAGAACTGAA
* * *
58107993 CACAAGTTTATTGGGCGAAATTGTGCAAAGTTTGTGCAATTAAAGGGTAAAAGGGATATATTAGA
196 CACAAATTTATTGGGCGAAATTGTGCAAAGTTTGTGCAATTAAAGGGTAAAAGGGATATATCAAA
58108058 GGGTACTTTATTGTCATGGAATTAAGAGGCATAATAGCTTA
261 GGGTACTTTATTGTCATGGAATTAAGAGGCATAATAGCTTA
* ** * *
58108099 TCCAAATCTATCTTGATGGCCATCCATCTTTTGTGTTTGC-TCTCATGG-ATGAATAACTTCTTG
1 TCCAAATCTATCTTAATAACCATCCATATTTTGTGTTTGCTTCTCATGGAATAAATAACTTCTTG
** * * * * *
58108162 GGTGATTATGATATTGTTAGTGATATTACTTCCAG-AAATAAAACCCGCATTTTCTGGGCCAGTG
66 GACGACTATGATATTGTTAGTGATATTACTTCCAGCAAA-AAAACCCACATATTCTAGGCCAATG
* *
58108226 ATTCTAGGAAAAACAACCTTATATCTATTCAGAATGATCTTTAGGACCTGCTTGTAAAGAACTGA
130 ATTCTAGGAAAAACAACCTTATATCTATTCAGAATGATATTTAGGACCTGCATGTAAAGAACTGA
* *
58108291 ACACAAATTTATTGGGTGAAATTGTGCAAAGTTCT-TGCAATTAAAGGGTAGAAGGGATATATCA
195 ACACAAATTTATTGGGCGAAATTGTGCAAAGTT-TGTGCAATTAAAGGGTAAAAGGGATATATCA
*
58108355 AAGGGTATTTTATTGTCATGGAATTAA
259 AAGGGTACTTTATTGTCATGGAATTAA
58108382 AAGGTAGAAT
Statistics
Matches: 251, Mismatches: 30, Indels: 6
0.87 0.10 0.02
Matches are distributed among these distances:
298 3 0.01
299 203 0.81
300 9 0.04
301 36 0.14
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (301 bp):
TCCAAATCTATCTTAATAACCATCCATATTTTGTGTTTGCTTCTCATGGAATAAATAACTTCTTG
GACGACTATGATATTGTTAGTGATATTACTTCCAGCAAAAAAACCCACATATTCTAGGCCAATGA
TTCTAGGAAAAACAACCTTATATCTATTCAGAATGATATTTAGGACCTGCATGTAAAGAACTGAA
CACAAATTTATTGGGCGAAATTGTGCAAAGTTTGTGCAATTAAAGGGTAAAAGGGATATATCAAA
GGGTACTTTATTGTCATGGAATTAAGAGGCATAATAGCTTA
Found at i:58108791 original size:25 final size:25
Alignment explanation
Indices: 58108751--58108799 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
58108741 TGCACACCAA
* *
58108751 ACAATTTTTCTTTATCATTTTTTTT
1 ACAATTTCTCTCTATCATTTTTTTT
58108776 ACAATTTCTCTCTATCATTTTTTT
1 ACAATTTCTCTCTATCATTTTTTT
58108800 GTACCCTATC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.20, C:0.16, G:0.00, T:0.63
Consensus pattern (25 bp):
ACAATTTCTCTCTATCATTTTTTTT
Found at i:58113194 original size:50 final size:51
Alignment explanation
Indices: 58113081--58113206 Score: 173
Period size: 50 Copynumber: 2.5 Consensus size: 51
58113071 ACATGTCAAA
* ** * *
58113081 GCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACAGGGGATCCTCTCATCTCGGTGCCAAT
* * *
58113132 GCCATGTCCCAGACATGATCTTACGGGGGA-CCTCTCGTCTCGGTGCCAAT
1 GCCATGTCCCAGACATGGTCTTACAGGGGATCCTCTCATCTCGGTGCCAAT
58113182 GCCATGTCCCAGACATGGTCTTACA
1 GCCATGTCCCAGACATGGTCTTACA
58113207 CGATGCCAAT
Statistics
Matches: 65, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
50 38 0.58
51 27 0.42
ACGTcount: A:0.19, C:0.30, G:0.25, T:0.26
Consensus pattern (51 bp):
GCCATGTCCCAGACATGGTCTTACAGGGGATCCTCTCATCTCGGTGCCAAT
Found at i:58113221 original size:35 final size:35
Alignment explanation
Indices: 58113175--58113241 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 35
58113165 CTCGTCTCGG
58113175 TGCCAATGCCATGTCCCAGACATGGTCTTACACGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACACGA
* **
58113210 TGCCAATGCCATGTTCCAGTTATGGTCTTACA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACA
58113242 TGAGAGCTCC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (35 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACACGA
Found at i:58113673 original size:30 final size:30
Alignment explanation
Indices: 58113639--58113695 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
58113629 CCTCGACTCT
58113639 AACTTTGTA-AAAATTACAATTTTGCCCCTA
1 AACTTT-TACAAAATTACAATTTTGCCCCTA
* *
58113669 AACTTTTACATAATTACATTTTTGCCC
1 AACTTTTACAAAATTACAATTTTGCCC
58113696 TAAGGCTCGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 2 0.08
30 22 0.92
ACGTcount: A:0.33, C:0.21, G:0.05, T:0.40
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:58116389 original size:3 final size:3
Alignment explanation
Indices: 58116374--58116417 Score: 79
Period size: 3 Copynumber: 14.3 Consensus size: 3
58116364 ACAAATATAT
58116374 TAA TAA TATA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
58116418 GATAGTACTA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 37 0.93
4 3 0.08
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:58117229 original size:16 final size:16
Alignment explanation
Indices: 58117208--58117238 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
58117198 TTTATACTGA
*
58117208 AAATAATCATAATAAT
1 AAATAATAATAATAAT
58117224 AAATAATAATAATAA
1 AAATAATAATAATAA
58117239 ATCCTATATC
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:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (16 bp):
AAATAATAATAATAAT
Found at i:58117234 original size:13 final size:13
Alignment explanation
Indices: 58117216--58117240 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58117206 GAAAATAATC
58117216 ATAATAATAAATA
1 ATAATAATAAATA
58117229 ATAATAATAAAT
1 ATAATAATAAAT
58117241 CCTATATCTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
ATAATAATAAATA
Found at i:58117363 original size:36 final size:36
Alignment explanation
Indices: 58117316--58117396 Score: 144
Period size: 36 Copynumber: 2.2 Consensus size: 36
58117306 AGGGCGACTT
*
58117316 GCTGCAACGTTCGCGGAGTTGCTGTGCATGGGTGAG
1 GCTGCTACGTTCGCGGAGTTGCTGTGCATGGGTGAG
*
58117352 GCTGCTACGTTCGCGGAGTTGCTGTGCGTGGGTGAG
1 GCTGCTACGTTCGCGGAGTTGCTGTGCATGGGTGAG
58117388 GCTGCTACG
1 GCTGCTACG
58117397 ACAGAGGCGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 43 1.00
ACGTcount: A:0.11, C:0.21, G:0.42, T:0.26
Consensus pattern (36 bp):
GCTGCTACGTTCGCGGAGTTGCTGTGCATGGGTGAG
Found at i:58119668 original size:21 final size:22
Alignment explanation
Indices: 58119642--58119690 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
58119632 AAAATTTTTT
58119642 TAAAAAATTAAATTAAAAA-AA
1 TAAAAAATTAAATTAAAAAGAA
* * *
58119663 TAAAAAATTTATTTAAAAAGTA
1 TAAAAAATTAAATTAAAAAGAA
58119685 TAAAAA
1 TAAAAA
58119691 TTATAAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (22 bp):
TAAAAAATTAAATTAAAAAGAA
Found at i:58119700 original size:20 final size:19
Alignment explanation
Indices: 58119655--58119703 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
58119645 AAAATTAAAT
58119655 TAAAAAAATAAAAAATTTA
1 TAAAAAAATAAAAAATTTA
* *
58119674 TTTAAAAAGTATAAAAA-TTA
1 -TAAAAAAATA-AAAAATTTA
58119694 TAAAAAAATA
1 TAAAAAAATA
58119704 TTTTTAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 8 0.33
20 11 0.46
21 5 0.21
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (19 bp):
TAAAAAAATAAAAAATTTA
Found at i:58119712 original size:12 final size:12
Alignment explanation
Indices: 58119697--58119722 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
58119687 AAAATTATAA
58119697 AAAAATATTTTT
1 AAAAATATTTTT
58119709 AAAAATATTTTT
1 AAAAATATTTTT
58119721 AA
1 AA
58119723 TTTAAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
AAAAATATTTTT
Found at i:58128030 original size:21 final size:21
Alignment explanation
Indices: 58128004--58128044 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
58127994 AGACGAGCAA
* *
58128004 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
58128025 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
58128045 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:58135395 original size:111 final size:111
Alignment explanation
Indices: 58135201--58135422 Score: 444
Period size: 111 Copynumber: 2.0 Consensus size: 111
58135191 TATGCAATTG
58135201 AAGTTTAATAGGGGAAACGACGAAGGAAAGCACTAGTATATTAAGTTTTCTTTAGACAGCATGGT
1 AAGTTTAATAGGGGAAACGACGAAGGAAAGCACTAGTATATTAAGTTTTCTTTAGACAGCATGGT
58135266 GAAGAATGAACAAGGTTAGATTGTATTGGACTTAGATGTATCGATT
66 GAAGAATGAACAAGGTTAGATTGTATTGGACTTAGATGTATCGATT
58135312 AAGTTTAATAGGGGAAACGACGAAGGAAAGCACTAGTATATTAAGTTTTCTTTAGACAGCATGGT
1 AAGTTTAATAGGGGAAACGACGAAGGAAAGCACTAGTATATTAAGTTTTCTTTAGACAGCATGGT
58135377 GAAGAATGAACAAGGTTAGATTGTATTGGACTTAGATGTATCGATT
66 GAAGAATGAACAAGGTTAGATTGTATTGGACTTAGATGTATCGATT
58135423 TATTAATATT
Statistics
Matches: 111, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
111 111 1.00
ACGTcount: A:0.36, C:0.09, G:0.25, T:0.30
Consensus pattern (111 bp):
AAGTTTAATAGGGGAAACGACGAAGGAAAGCACTAGTATATTAAGTTTTCTTTAGACAGCATGGT
GAAGAATGAACAAGGTTAGATTGTATTGGACTTAGATGTATCGATT
Found at i:58136385 original size:24 final size:24
Alignment explanation
Indices: 58136353--58136401 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
58136343 ATAATGCCTT
58136353 AAACTCGTATTCTTAATTCGTTAA
1 AAACTCGTATTCTTAATTCGTTAA
58136377 AAACTCGTATTCTTAATTCGTTAA
1 AAACTCGTATTCTTAATTCGTTAA
58136401 A
1 A
58136402 CTGATGAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.35, C:0.16, G:0.08, T:0.41
Consensus pattern (24 bp):
AAACTCGTATTCTTAATTCGTTAA
Found at i:58143650 original size:12 final size:11
Alignment explanation
Indices: 58143628--58143657 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
58143618 TAAAATTAGT
58143628 TAAATAATAAA
1 TAAATAATAAA
58143639 TAAATGAATAAA
1 TAAAT-AATAAA
58143651 TAAATAA
1 TAAATAA
58143658 AAAGGATAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (11 bp):
TAAATAATAAA
Found at i:58144051 original size:31 final size:31
Alignment explanation
Indices: 58143958--58144053 Score: 156
Period size: 31 Copynumber: 3.1 Consensus size: 31
58143948 GGCAAATTAC
*
58143958 AAGAGTAATTGAATCCTAATAAAACTCTTTC
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
*
58143989 AAGAGTAATTGAATCTTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
*
58144021 AAGGGTAATTGAATCCTAATAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
58144052 AA
1 AA
58144054 ATTATCTAAG
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
31 32 0.53
32 28 0.47
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.32
Consensus pattern (31 bp):
AAGAGTAATTGAATCCTAATAAAACTCTTTA
Found at i:58147216 original size:11 final size:11
Alignment explanation
Indices: 58147200--58147278 Score: 55
Period size: 11 Copynumber: 7.7 Consensus size: 11
58147190 AGGCAACTTT
58147200 TTTTTTTGCGC
1 TTTTTTTGCGC
58147211 -TTTTTT--GC
1 TTTTTTTGCGC
**
58147219 --TTTTTGCTT
1 TTTTTTTGCGC
58147228 TTTTTTTGCGC
1 TTTTTTTGCGC
* *
58147239 TTTTTACT-CTC
1 TTTTT-TTGCGC
58147250 TTTTTTTGCG-
1 TTTTTTTGCGC
*
58147260 TTTTTTTGCTC
1 TTTTTTTGCGC
58147271 TTTTTTTG
1 TTTTTTTG
58147279 TTTTTTTGCT
Statistics
Matches: 52, Mismatches: 9, Indels: 14
0.69 0.12 0.19
Matches are distributed among these distances:
7 5 0.10
8 2 0.04
10 16 0.31
11 28 0.54
12 1 0.02
ACGTcount: A:0.01, C:0.15, G:0.13, T:0.71
Consensus pattern (11 bp):
TTTTTTTGCGC
Found at i:58147234 original size:20 final size:21
Alignment explanation
Indices: 58147211--58147294 Score: 59
Period size: 20 Copynumber: 4.0 Consensus size: 21
58147201 TTTTTTGCGC
58147211 TTTTTTGCTTTTTGCT-TTTT
1 TTTTTTGCTTTTTGCTCTTTT
** * *
58147231 TTTTGCGCTTTTTACTC-TCT
1 TTTTTTGCTTTTTGCTCTTTT
58147251 TTTTTTGCGTTTTTTTGCTCTTTT
1 TTTTTTGC---TTTTTGCTCTTTT
* *
58147275 TTTGTT--TTTTTGCTGTTTT
1 TTTTTTGCTTTTTGCTCTTTT
58147294 T
1 T
58147295 GCTTTTATTT
Statistics
Matches: 49, Mismatches: 10, Indels: 11
0.70 0.14 0.16
Matches are distributed among these distances:
19 13 0.27
20 21 0.43
23 8 0.16
24 7 0.14
ACGTcount: A:0.01, C:0.13, G:0.12, T:0.74
Consensus pattern (21 bp):
TTTTTTGCTTTTTGCTCTTTT
Found at i:58147256 original size:22 final size:21
Alignment explanation
Indices: 58147211--58147294 Score: 72
Period size: 21 Copynumber: 4.2 Consensus size: 21
58147201 TTTTTTGCGC
*
58147211 TTTTTTGC--TTTT-TGCTTT
1 TTTTTTGCGTTTTTCTGCTCT
58147229 TTTTTTGCGCTTTTTACT-CTCT
1 TTTTTTGCG-TTTTT-CTGCTCT
*
58147251 TTTTTTGCGTTTTTTTGCTCT
1 TTTTTTGCGTTTTTCTGCTCT
* *
58147272 TTTTTT--GTTTTTTTGCTGT
1 TTTTTTGCGTTTTTCTGCTCT
58147291 TTTT
1 TTTT
58147295 GCTTTTATTT
Statistics
Matches: 57, Mismatches: 3, Indels: 11
0.80 0.04 0.15
Matches are distributed among these distances:
18 8 0.14
19 16 0.28
20 1 0.02
21 19 0.33
22 12 0.21
23 1 0.02
ACGTcount: A:0.01, C:0.13, G:0.12, T:0.74
Consensus pattern (21 bp):
TTTTTTGCGTTTTTCTGCTCT
Found at i:58147274 original size:9 final size:9
Alignment explanation
Indices: 58147249--58147300 Score: 61
Period size: 9 Copynumber: 5.6 Consensus size: 9
58147239 TTTTTACTCT
58147249 CTTTTTTTG
1 CTTTTTTTG
58147258 CGTTTTTTTG
1 C-TTTTTTTG
58147268 CTCTTTTTTTG
1 --CTTTTTTTG
58147279 -TTTTTTTG
1 CTTTTTTTG
*
58147287 CTGTTTTTG
1 CTTTTTTTG
58147296 CTTTT
1 CTTTT
58147301 ATTTAAAGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
8 8 0.22
9 12 0.32
10 8 0.22
11 8 0.22
12 1 0.03
ACGTcount: A:0.00, C:0.12, G:0.13, T:0.75
Consensus pattern (9 bp):
CTTTTTTTG
Found at i:58147285 original size:11 final size:11
Alignment explanation
Indices: 58147219--58147294 Score: 63
Period size: 11 Copynumber: 7.3 Consensus size: 11
58147209 GCTTTTTTGC
*
58147219 TTTTTGCTTTT
1 TTTTTGCTCTT
*
58147230 TTTTTGCGCTT
1 TTTTTGCTCTT
*
58147241 TTTACT-CTCTT
1 TTT-TTGCTCTT
*
58147252 TTTTTGC-GTT
1 TTTTTGCTCTT
58147262 TTTTTGCTCTT
1 TTTTTGCTCTT
58147273 TTTTTG---TT
1 TTTTTGCTCTT
*
58147281 TTTTTGCTGTT
1 TTTTTGCTCTT
58147292 TTT
1 TTT
58147295 GCTTTTATTT
Statistics
Matches: 52, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
8 8 0.15
10 10 0.19
11 33 0.63
12 1 0.02
ACGTcount: A:0.01, C:0.13, G:0.12, T:0.74
Consensus pattern (11 bp):
TTTTTGCTCTT
Found at i:58147543 original size:12 final size:11
Alignment explanation
Indices: 58147521--58147550 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
58147511 TAAAATTAGT
58147521 TAAATAATAAA
1 TAAATAATAAA
58147532 TAAATGAATAAA
1 TAAAT-AATAAA
58147544 TAAATAA
1 TAAATAA
58147551 AAAGGATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (11 bp):
TAAATAATAAA
Found at i:58147944 original size:31 final size:31
Alignment explanation
Indices: 58147851--58147946 Score: 165
Period size: 31 Copynumber: 3.1 Consensus size: 31
58147841 GGCAAATTAC
*
58147851 AAGAGTAATTGAATCCTAATAAAACTCTTTC
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
58147882 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
*
58147914 AAGGGTAATTGAATCCTAATAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
58147945 AA
1 AA
58147947 ATTATCTAAG
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
31 33 0.53
32 29 0.47
ACGTcount: A:0.45, C:0.14, G:0.10, T:0.31
Consensus pattern (31 bp):
AAGAGTAATTGAATCCTAATAAAACTCTTTA
Found at i:58153706 original size:39 final size:39
Alignment explanation
Indices: 58153663--58153740 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
58153653 GAGAAATTTG
58153663 ATGTGTATGTATGATACTATTATCATTTTCTTAAGTTTA
1 ATGTGTATGTATGATACTATTATCATTTTCTTAAGTTTA
58153702 ATGTGTATGTATGATACTATTATCATTTTCTTAAGTTTA
1 ATGTGTATGTATGATACTATTATCATTTTCTTAAGTTTA
58153741 CATAATGATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.28, C:0.08, G:0.13, T:0.51
Consensus pattern (39 bp):
ATGTGTATGTATGATACTATTATCATTTTCTTAAGTTTA
Found at i:58156553 original size:11 final size:11
Alignment explanation
Indices: 58156528--58156571 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
58156518 TATTTTTTAA
*
58156528 TTTTAAAATAA
1 TTTTAAAATAT
58156539 TTTTAAAATAT
1 TTTTAAAATAT
58156550 TTTT----TAT
1 TTTTAAAATAT
58156557 TTTTAAAATAT
1 TTTTAAAATAT
58156568 TTTT
1 TTTT
58156572 TGTGTTTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
7 7 0.25
11 21 0.75
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:58156579 original size:18 final size:18
Alignment explanation
Indices: 58156540--58156579 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
58156530 TTAAAATAAT
*
58156540 TTTAAAATATTTTTTATT
1 TTTAAAATATTTTTTATG
*
58156558 TTTAAAATATTTTTTGTG
1 TTTAAAATATTTTTTATG
58156576 TTTA
1 TTTA
58156580 TTAAAAATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (18 bp):
TTTAAAATATTTTTTATG
Found at i:58160310 original size:16 final size:17
Alignment explanation
Indices: 58160289--58160324 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
58160279 ATAAATTTAG
58160289 TTTTTAAT-ATTTAATT
1 TTTTTAATAATTTAATT
*
58160305 TTTTTATTAATTTAATT
1 TTTTTAATAATTTAATT
58160322 TTT
1 TTT
58160325 AATCTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTTTAATAATTTAATT
Found at i:58160318 original size:24 final size:23
Alignment explanation
Indices: 58160291--58160347 Score: 71
Period size: 24 Copynumber: 2.5 Consensus size: 23
58160281 AAATTTAGTT
*
58160291 TTTAATATTTAATTTTTTTATTAA
1 TTTAATATTTAATCTTTTT-TTAA
*
58160315 TTTAATTTTTAATCTTTTTTTAA
1 TTTAATATTTAATCTTTTTTTAA
*
58160338 GTTAA-ATTTA
1 TTTAATATTTA
58160348 GTCATTAATC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 4 0.14
23 8 0.28
24 17 0.59
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (23 bp):
TTTAATATTTAATCTTTTTTTAA
Found at i:58160636 original size:30 final size:28
Alignment explanation
Indices: 58160552--58160668 Score: 103
Period size: 29 Copynumber: 4.0 Consensus size: 28
58160542 AAAATTATGT
**
58160552 TTTAACCCCTGTACATTT-TAAAATTTACA
1 TTTAACCCCTAAAC-TTTCTAAAA-TTACA
* *
58160581 TTTTGACCCC-AAATTTTCTAAAATTACA
1 -TTTAACCCCTAAACTTTCTAAAATTACA
*
58160609 TTTAAACCCTTAAACTTTCTCAAAATTACA
1 TTT-AACCCCTAAACTTTCT-AAAATTACA
* *
58160639 CTTGACCCCTAAACTTTCTAAAAATTACA
1 TTTAACCCCTAAACTTTCT-AAAATTACA
58160668 T
1 T
58160669 CTTGGCTCTA
Statistics
Matches: 71, Mismatches: 12, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
27 3 0.04
28 12 0.17
29 37 0.52
30 19 0.27
ACGTcount: A:0.37, C:0.23, G:0.03, T:0.38
Consensus pattern (28 bp):
TTTAACCCCTAAACTTTCTAAAATTACA
Found at i:58162037 original size:30 final size:30
Alignment explanation
Indices: 58162001--58162058 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
58161991 TCATGTTTCC
*
58162001 AAAATTTCCCGTGTTTCAAAAAATAATAAT
1 AAAATTTCCCGTGTTTCAAAAAAAAATAAT
*
58162031 AAAATTTCTCGTGTTTCAAAAAAAAATA
1 AAAATTTCCCGTGTTTCAAAAAAAAATA
58162059 TATTCGTGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.48, C:0.12, G:0.07, T:0.33
Consensus pattern (30 bp):
AAAATTTCCCGTGTTTCAAAAAAAAATAAT
Found at i:58162066 original size:23 final size:24
Alignment explanation
Indices: 58162039--58162099 Score: 79
Period size: 23 Copynumber: 2.5 Consensus size: 24
58162029 ATAAAATTTC
58162039 TCGTGTTTCAAAAAAAAAT-ATAT
1 TCGTGTTTCAAAAAAAAATAATAT
** *
58162062 TCGTGTTTTTAAAAAAAATAATTT
1 TCGTGTTTCAAAAAAAAATAATAT
58162086 TCGTGTTTTCAAAA
1 TCGTG-TTTCAAAA
58162100 TTTCTCGTGT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
23 17 0.55
24 8 0.26
25 6 0.19
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (24 bp):
TCGTGTTTCAAAAAAAAATAATAT
Found at i:58162088 original size:24 final size:24
Alignment explanation
Indices: 58162033--58162099 Score: 82
Period size: 24 Copynumber: 2.8 Consensus size: 24
58162023 ATAATAATAA
*
58162033 AATTTCTCGTGTTTCAAAAAAAAAT
1 AATTT-TCGTGTTTTAAAAAAAAAT
* *
58162058 -ATATTCGTGTTTTTAAAAAAAAT
1 AATTTTCGTGTTTTAAAAAAAAAT
*
58162081 AATTTTCGTGTTTTCAAAA
1 AATTTTCGTGTTTTAAAAA
58162100 TTTCTCGTGT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
23 17 0.47
24 19 0.53
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.42
Consensus pattern (24 bp):
AATTTTCGTGTTTTAAAAAAAAAT
Found at i:58162121 original size:27 final size:26
Alignment explanation
Indices: 58162091--58162145 Score: 65
Period size: 27 Copynumber: 2.1 Consensus size: 26
58162081 AATTTTCGTG
*
58162091 TTTTCAAAATTTCTCGTGTTTTAAAAA
1 TTTTCAAAATTTCTCGT-TTTCAAAAA
* **
58162118 TTTTCGATTTTTCTCGTTTTCAAAAA
1 TTTTCAAAATTTCTCGTTTTCAAAAA
58162144 TT
1 TT
58162146 GTCGTGTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 10 0.42
27 14 0.58
ACGTcount: A:0.27, C:0.13, G:0.07, T:0.53
Consensus pattern (26 bp):
TTTTCAAAATTTCTCGTTTTCAAAAA
Found at i:58162129 original size:17 final size:17
Alignment explanation
Indices: 58162081--58162123 Score: 68
Period size: 18 Copynumber: 2.5 Consensus size: 17
58162071 TAAAAAAAAT
*
58162081 AATTTTCGTGTTTTCAA
1 AATTTTCGTGTTTTAAA
58162098 AATTTCTCGTGTTTTAAA
1 AATTT-TCGTGTTTTAAA
58162116 AATTTTCG
1 AATTTTCG
58162124 ATTTTTCTCG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 8 0.33
18 16 0.67
ACGTcount: A:0.26, C:0.12, G:0.12, T:0.51
Consensus pattern (17 bp):
AATTTTCGTGTTTTAAA
Found at i:58162181 original size:15 final size:16
Alignment explanation
Indices: 58162160--58162206 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
58162150 TGTTTTAAAA
58162160 AAAAATTCGTGTTTCT
1 AAAAATTCGTGTTTCT
* *
58162176 -AAAATTCTTGTATTTT
1 AAAAATTCGTGT-TTCT
58162192 AAAAAATTCGTGTTT
1 -AAAAATTCGTGTTT
58162207 TCAAAAAAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
15 10 0.40
16 3 0.12
17 2 0.08
18 10 0.40
ACGTcount: A:0.34, C:0.09, G:0.11, T:0.47
Consensus pattern (16 bp):
AAAAATTCGTGTTTCT
Found at i:58162212 original size:17 final size:17
Alignment explanation
Indices: 58162133--58162214 Score: 69
Period size: 18 Copynumber: 4.7 Consensus size: 17
58162123 GATTTTTCTC
*
58162133 GTTTTCAAAAATTGTCGT
1 GTTTTCAAAAAAT-TCGT
*
58162151 GTTTTAAAAAAAAATTCGT
1 GTTTT--CAAAAAATTCGT
* *
58162170 G-TTTC-TAAAATTCTT
1 GTTTTCAAAAAATTCGT
*
58162185 GTATTTTAAAAAATTCGT
1 GT-TTTCAAAAAATTCGT
58162203 GTTTTCAAAAAA
1 GTTTTCAAAAAA
58162215 GGAAAAAGTT
Statistics
Matches: 50, Mismatches: 9, Indels: 11
0.71 0.13 0.16
Matches are distributed among these distances:
15 9 0.18
17 12 0.24
18 18 0.36
19 5 0.10
20 6 0.12
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.43
Consensus pattern (17 bp):
GTTTTCAAAAAATTCGT
Found at i:58166871 original size:30 final size:30
Alignment explanation
Indices: 58166829--58166929 Score: 157
Period size: 30 Copynumber: 3.4 Consensus size: 30
58166819 GCTTTTCTAT
*
58166829 GGCTTCTACATGGACAGTCGGCGCTTCTGC
1 GGCTTCTGCATGGACAGTCGGCGCTTCTGC
* *
58166859 GGCTTCGGCATGGACAGTCGGCACTTCTGC
1 GGCTTCTGCATGGACAGTCGGCGCTTCTGC
* *
58166889 GGCTTCTGCATGGACAGTCGACGTTTCTGC
1 GGCTTCTGCATGGACAGTCGGCGCTTCTGC
58166919 GGCTTCTGCAT
1 GGCTTCTGCAT
58166930 AGTCCGTCGG
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 64 1.00
ACGTcount: A:0.13, C:0.29, G:0.31, T:0.28
Consensus pattern (30 bp):
GGCTTCTGCATGGACAGTCGGCGCTTCTGC
Found at i:58167785 original size:108 final size:103
Alignment explanation
Indices: 58167588--58167989 Score: 422
Period size: 108 Copynumber: 3.8 Consensus size: 103
58167578 TCTTTTTATT
*
58167588 TTGTATAAAGTGGGTGCC-AGCCATTGCCAGACCACCTCTAATTTTTTTTTTACTTTTTTCGTAT
1 TTGTATAAAG-GGGTGCCGA-CCATTGCCAGGCCACC-C-AATTTTTTTTTTACTTTTTTCGTAT
**
58167652 ACTGGTGCCGGCCATTGTCACACCAAAAGTAAAAAAAATATTTA
62 ACTGGTGCCGGCCATTAACA-ACCAAAAGTAAAAAAAA-ATTTA
*
58167696 TTGTATAAAGGGAGTGCCGACTATTGCCAGGCCACCCCAAATTTTTTTTTTACTTTTTTCGTATA
1 TTGTATAAAGGG-GTGCCGACCATTGCCAGGCCA-CCC-AATTTTTTTTTTACTTTTTTCGTATA
*
58167761 CTGGTGCCGGCCATTAACAGACCAAAAG-GAAAAAAAA---A
63 CTGGTGCCGGCCATTAACA-ACCAAAAGTAAAAAAAAATTTA
* * * * *
58167799 TTGTATAAATGGGGTGTCGGCCATTGCCAGGCCACCTGAA-TTTTTTTTTACATTTTTCGTATGC
1 TTGTATAAA-GGGGTGCCGACCATTGCCAGGCCACC-CAATTTTTTTTTTACTTTTTTCGTATAC
*
58167863 TGGTGCCGGCCAATTATAC-ATCAAAAGTAAAAAACAAAAATTTA
64 TGGTGCCGGCC-ATTA-ACAACCAAAAGT--AAAA-AAAAATTTA
* * * * *
58167907 TTGTAAAAAGGGGGTGTCGACCATTGCCAGGTCACTCAATTTTTTTTTTACTTTTTTCGTATTCT
1 TTGTATAAA-GGGGTGCCGACCATTGCCAGGCCACCCAATTTTTTTTTTACTTTTTTCGTATACT
* * *
58167972 GATGCTGGCCATTGACAA
65 GGTGCCGGCCATTAACAA
58167990 AACAACACCC
Statistics
Matches: 252, Mismatches: 26, Indels: 33
0.81 0.08 0.11
Matches are distributed among these distances:
101 40 0.16
102 8 0.03
103 30 0.12
104 6 0.02
105 5 0.02
106 3 0.01
107 15 0.06
108 142 0.56
109 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (103 bp):
TTGTATAAAGGGGTGCCGACCATTGCCAGGCCACCCAATTTTTTTTTTACTTTTTTCGTATACTG
GTGCCGGCCATTAACAACCAAAAGTAAAAAAAAATTTA
Found at i:58168006 original size:209 final size:212
Alignment explanation
Indices: 58167588--58168042 Score: 555
Period size: 209 Copynumber: 2.2 Consensus size: 212
58167578 TCTTTTTATT
* * * * *
58167588 TTGTATAAAGTGGGTGCCAGCCATTGCCAGACCACCTCTAATTTTTTTTTTACTTTTTTCGTATA
1 TTGTATAAAGCGGGTGCCGGCCATTGCCAGGCCACCTCGAATTTTTTTTTTACATTTTTCGTATA
* * * *
58167653 CTGGTGCCGGCCATTGTCACACCAAAAGTAAAAAAAATATTTATTGTATAAAGGGAGTGCCGACT
66 CTGGTGCCGGCCATTATCACACCAAAAGTAAAAAAAAAATTTATTGTAAAAAGGGAGTGCCGACC
* * *
58167718 ATTGCCAGGCCACCCCAAATTTTTTTTTTACTTTTTTCGTATACTGGTGCCGGCCATTAACAGAC
131 ATTGCCAGGCCACCCCAAATTTTTTTTTTACTTTTTTCGTATACTGATGCCGGCCATTAACAAAA
**
58167783 CAAAA-GGAAAAAAAAA
196 CAAAACCAAAAAAAAAA
*
58167799 TTGTATAAATG-GGGTGTCGGCCATTGCCAGGCCACCT-GAA-TTTTTTTTTACATTTTTCGTAT
1 TTGTATAAA-GCGGGTGCCGGCCATTGCCAGGCCACCTCGAATTTTTTTTTTACATTTTTCGTAT
* * * *
58167861 GCTGGTGCCGGCCAATTAT-ACATCAAAAGTAAAAAACAAAAATTTATTGTAAAAAGGGGGTGTC
65 ACTGGTGCCGGCC-ATTATCACACCAAAAGT-AAAAA-AAAAATTTATTGTAAAAAGGGAGTGCC
* * * * *
58167925 GACCATTGCCAGGTCA-CTC-AATTTTTTTTTTACTTTTTTCGTATTCTGATGCTGGCCATTGAC
127 GACCATTGCCAGGCCACCCCAAATTTTTTTTTTACTTTTTTCGTATACTGATGCCGGCCATTAAC
* *
58167988 AAAACAACACCCAAAAAAAAA
192 AAAACAAAACCAAAAAAAAAA
* *
58168009 TTACGTATAAAGCAGGTGCCGGCCATTGACAGGC
1 TT--GTATAAAGCGGGTGCCGGCCATTGCCAGGC
58168043 TAACACCAAA
Statistics
Matches: 209, Mismatches: 27, Indels: 15
0.83 0.11 0.06
Matches are distributed among these distances:
209 89 0.43
210 24 0.11
211 70 0.33
212 26 0.12
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (212 bp):
TTGTATAAAGCGGGTGCCGGCCATTGCCAGGCCACCTCGAATTTTTTTTTTACATTTTTCGTATA
CTGGTGCCGGCCATTATCACACCAAAAGTAAAAAAAAAATTTATTGTAAAAAGGGAGTGCCGACC
ATTGCCAGGCCACCCCAAATTTTTTTTTTACTTTTTTCGTATACTGATGCCGGCCATTAACAAAA
CAAAACCAAAAAAAAAA
Found at i:58169499 original size:50 final size:51
Alignment explanation
Indices: 58169424--58169522 Score: 182
Period size: 50 Copynumber: 2.0 Consensus size: 51
58169414 TTTTCACACA
58169424 AAAAGTAAAAAAAAATTATTATATAATGTGGGTGCCTGCCATTGCCAGGTC
1 AAAAGTAAAAAAAAATTATTATATAATGTGGGTGCCTGCCATTGCCAGGTC
*
58169475 AAAAG-AAAAAAAAATTATTGTATAATGTGGGTGCCTGCCATTGCCAGG
1 AAAAGTAAAAAAAAATTATTATATAATGTGGGTGCCTGCCATTGCCAGG
58169523 CCACCCCAAT
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
50 42 0.89
51 5 0.11
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.26
Consensus pattern (51 bp):
AAAAGTAAAAAAAAATTATTATATAATGTGGGTGCCTGCCATTGCCAGGTC
Found at i:58171942 original size:30 final size:30
Alignment explanation
Indices: 58171894--58171987 Score: 98
Period size: 30 Copynumber: 3.1 Consensus size: 30
58171884 TTTCTCAATT
* **
58171894 GTCGGCTCTTCTGTGGCTTCTGCATGGATA
1 GTCGGCACTTCTCCGGCTTCTGCATGGATA
** * *
58171924 GTCGGTGCTTTTCCGGCTTCGGCATGGATA
1 GTCGGCACTTCTCCGGCTTCTGCATGGATA
* * *
58171954 GTCGGCACTTCTGCGGCTTTTGCATGGACA
1 GTCGGCACTTCTCCGGCTTCTGCATGGATA
58171984 GTCG
1 GTCG
58171988 ACGTTTCTGC
Statistics
Matches: 51, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.11, C:0.24, G:0.32, T:0.33
Consensus pattern (30 bp):
GTCGGCACTTCTCCGGCTTCTGCATGGATA
Found at i:58172026 original size:30 final size:30
Alignment explanation
Indices: 58171901--58172010 Score: 94
Period size: 30 Copynumber: 3.7 Consensus size: 30
58171891 ATTGTCGGCT
* * * **
58171901 CTTCTGTGGCTTCTGCATGGATAGTCGGTG
1 CTTCTGCGGCTTTTGCATGGACAGTCGACG
* * ** * * *
58171931 CTTTTCCGGCTTCGGCATGGATAGTCGGCA
1 CTTCTGCGGCTTTTGCATGGACAGTCGACG
58171961 CTTCTGCGGCTTTTGCATGGACAGTCGACG
1 CTTCTGCGGCTTTTGCATGGACAGTCGACG
* *
58171991 TTTCTGCGGCTTTTGTATGG
1 CTTCTGCGGCTTTTGCATGG
58172011 TCTATCGGTG
Statistics
Matches: 65, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 65 1.00
ACGTcount: A:0.11, C:0.23, G:0.31, T:0.35
Consensus pattern (30 bp):
CTTCTGCGGCTTTTGCATGGACAGTCGACG
Found at i:58173073 original size:30 final size:30
Alignment explanation
Indices: 58173039--58173180 Score: 101
Period size: 30 Copynumber: 4.7 Consensus size: 30
58173029 TTCCTCAATT
* *
58173039 GTCGGCTCTTCGGTGGCTTCTGTATGGACA
1 GTCGGCTCTTCTGCGGCTTCTGTATGGACA
* *
58173069 GTCGG-TGCTTCTACAGCTT-TGGTATGGACA
1 GTCGGCT-CTTCTGCGGCTTCT-GTATGGACA
* **
58173099 GTCGGCACTTCTGCGGCTTCTCCATGGACA
1 GTCGGCTCTTCTGCGGCTTCTGTATGGACA
** ** * *
58173129 GTCAACAT-TTCTGCGGCTTCTACATGGTCC
1 GTCGGC-TCTTCTGCGGCTTCTGTATGGACA
* *
58173159 GTCGGCACTTCTGTGGCTTCTG
1 GTCGGCTCTTCTGCGGCTTCTG
58173181 CATTAATCGT
Statistics
Matches: 86, Mismatches: 20, Indels: 12
0.73 0.17 0.10
Matches are distributed among these distances:
29 2 0.02
30 83 0.97
31 1 0.01
ACGTcount: A:0.13, C:0.27, G:0.28, T:0.32
Consensus pattern (30 bp):
GTCGGCTCTTCTGCGGCTTCTGTATGGACA
Found at i:58173864 original size:30 final size:30
Alignment explanation
Indices: 58173830--58173937 Score: 153
Period size: 30 Copynumber: 3.6 Consensus size: 30
58173820 ATTGTTGGCT
* *
58173830 CTTCTGTGGCTTCTACATGGACAGTCGGCG
1 CTTCTGCGGCTTCTGCATGGACAGTCGGCG
* * *
58173860 CTTCTGCGGCTTCGGCATGGACAGCCGGCA
1 CTTCTGCGGCTTCTGCATGGACAGTCGGCG
*
58173890 CTTCTGCGGCTTCTGCATGGACAGTCGACG
1 CTTCTGCGGCTTCTGCATGGACAGTCGGCG
*
58173920 TTTCTGCGGCTTCTGCAT
1 CTTCTGCGGCTTCTGCAT
58173938 AGTCCGTCGG
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 68 1.00
ACGTcount: A:0.12, C:0.30, G:0.30, T:0.29
Consensus pattern (30 bp):
CTTCTGCGGCTTCTGCATGGACAGTCGGCG
Found at i:58175373 original size:98 final size:98
Alignment explanation
Indices: 58175201--58175395 Score: 354
Period size: 98 Copynumber: 2.0 Consensus size: 98
58175191 ACAATAAAAT
*
58175201 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATTCC
1 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
*
58175266 TCTAGAATCCCAAACTCGGAATATTTCCTTTAC
66 TCTAAAATCCCAAACTCGGAATATTTCCTTTAC
*
58175299 TTTAAAAGAACATCCACTTATCCAAGATTTAATAAATCACACCCAATACGTTAGGGCACAATTCC
1 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
*
58175364 TTTAAAATCCCAAACTCGGAATATTTCCTTTA
66 TCTAAAATCCCAAACTCGGAATATTTCCTTTA
58175396 TTGTTTTTAG
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.37, C:0.25, G:0.10, T:0.29
Consensus pattern (98 bp):
TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
TCTAAAATCCCAAACTCGGAATATTTCCTTTAC
Found at i:58176883 original size:19 final size:19
Alignment explanation
Indices: 58176859--58176971 Score: 181
Period size: 19 Copynumber: 5.8 Consensus size: 19
58176849 AATCATATAT
58176859 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
58176878 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
58176897 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
58176916 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
*
58176937 TCTAGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
58176956 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
58176972 CTCAAAAATT
Statistics
Matches: 86, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
19 68 0.79
21 18 0.21
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:58176946 original size:40 final size:40
Alignment explanation
Indices: 58176833--58176970 Score: 201
Period size: 40 Copynumber: 3.5 Consensus size: 40
58176823 TACAAATTAA
* *
58176833 ATATCTAAGATTACA-AAATCATATATTCTAAGATTGCATATC
1 ATATCTAAGATTGCATATATC--ATA-TCTAAGATTGCATATC
58176875 ATATCTAAGATT--ATATATCATATCTAAGATTGCATATC
1 ATATCTAAGATTGCATATATCATATCTAAGATTGCATATC
*
58176913 ATATCTAAGATTGCATATATCATATCTAGGATTGCATATC
1 ATATCTAAGATTGCATATATCATATCTAAGATTGCATATC
58176953 ATATCTAAGATTGCATAT
1 ATATCTAAGATTGCATAT
58176971 CCTCAAAAAT
Statistics
Matches: 91, Mismatches: 2, Indels: 8
0.90 0.02 0.08
Matches are distributed among these distances:
38 28 0.31
39 3 0.03
40 44 0.48
41 4 0.04
42 12 0.13
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.38
Consensus pattern (40 bp):
ATATCTAAGATTGCATATATCATATCTAAGATTGCATATC
Found at i:58176952 original size:59 final size:56
Alignment explanation
Indices: 58176852--58176971 Score: 179
Period size: 59 Copynumber: 2.1 Consensus size: 56
58176842 ATTACAAAAT
*
58176852 CATAT-ATTCTAAGATTGCATATCATATCTAAGATTATATATCATATCTAAGATTG
1 CATATCATTCTAAGATTGCATATCATATCTAAGATTACATATCATATCTAAGATTG
* *
58176907 CATATCATATCTAAGATTGCATATATCATATCTAGGATTGCATATCATATCTAAGATTG
1 CATATCAT-TCTAAGATTGC--ATATCATATCTAAGATTACATATCATATCTAAGATTG
58176966 CATATC
1 CATATC
58176972 CTCAAAAATT
Statistics
Matches: 58, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
55 5 0.09
56 2 0.03
57 11 0.19
59 40 0.69
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (56 bp):
CATATCATTCTAAGATTGCATATCATATCTAAGATTACATATCATATCTAAGATTG
Found at i:58177295 original size:44 final size:43
Alignment explanation
Indices: 58177233--58177738 Score: 320
Period size: 44 Copynumber: 11.7 Consensus size: 43
58177223 ACTAGATGCG
* * *
58177233 ATCTGCT-CTCTGTAACTTCAGAGAGATAAGATATAAGGTTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TAAGGTTTTA
* * * *
58177276 ATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTA-AGGTTTTA
**** *
58177320 ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTAAGGT-TTTA
* * *
58177365 GTCTGCCCCACTGCAACTTCA-GGAGGATAAGACTT--GCTTACTTA
1 ATCTGCTCCACTGCAACTTCAGGGA-GATAAGA-TTAAGGTT--TTA
* * * ***
58177409 GTCTGCTCCACTGCAACTTCAGGGAGATAAGATT--TGATGCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAAGGTTTTA
* *
58177450 ATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TAAGGTTTTA
* * *
58177493 AT-TCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTA
1 ATCT-GCTCCACTGCAACTTCAGGGAGATAAGATTA-AGGTTTTA
**** *
58177537 ATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTAAGGT-TTTA
* * * * * *
58177582 GTTTGCCCCACTACAACTTTA-GGAGGATAAGACTT--GCTTACTTA
1 ATCTGCTCCACTGCAACTTCAGGGA-GATAAGA-TTAAGGTT--TTA
* * * * ***
58177626 GTCTGCTCCACTGCAACTTCAGAGAGATAAGACT-A-GATGCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAAGGTTTTA
* *
58177667 ATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TAAGGTTTTA
**
58177710 ATCCACTCCACTGCAACTTCAGGGAGATA
1 ATCTGCTCCACTGCAACTTCAGGGAGATA
58177739 GGATCTACAA
Statistics
Matches: 362, Mismatches: 75, Indels: 51
0.74 0.15 0.10
Matches are distributed among these distances:
40 46 0.13
41 14 0.04
42 4 0.01
43 31 0.09
44 196 0.54
45 71 0.20
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (43 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAAGGTTTTA
Found at i:58177414 original size:89 final size:88
Alignment explanation
Indices: 58177321--58177659 Score: 290
Period size: 89 Copynumber: 3.9 Consensus size: 88
58177311 TCGGCTTTAA
58177321 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTGCCCCACTGCAACTTCA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-CATCTTCAGTCTGCCCCACTGCAACTTCA
58177386 G-GAGGATAAGACTTGCTTACTTAG
65 GAGA-GATAAGACTTGCTTACTTAG
* * * *
58177410 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-A--TGC-GATCTG-CTCTCTGCAACTTCA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCATCTTCAG-TCTGCCCCACTGCAACTTCA
* * *
58177470 GAGAGATAAGATCTAAGGTT--TTAA
65 GAGAGATAAGA-CT-TGCTTACTTAG
* * ** * * *
58177494 T-TCGCTCCACTGCAACTTCAGGGAGATAGGA-TTATCGGCTTTAATCTGCTCCACTGCAACTTC
1 TCT-GCTCCACTGCAACTTCAGGGAGATAAGACTT-GCATCTTCAGTCTGCCCCACTGCAACTTC
* *
58177557 AGGGAGATAAGACTTGC-CATCTTCAG
64 AGAGAGATAAGACTTGCTTA-CTT-AG
* * * * * *
58177583 TTTGCCCCACTACAACTTTA-GGAGGATAAGACTTGCTTACTT-AGTCTGCTCCACTGCAACTTC
1 TCTGCTCCACTGCAACTTCAGGGA-GATAAGACTTGCAT-CTTCAGTCTGCCCCACTGCAACTTC
58177646 AGAGAGATAAGACT
64 AGAGAGATAAGACT
58177660 AGATGCGATC
Statistics
Matches: 201, Mismatches: 30, Indels: 38
0.75 0.11 0.14
Matches are distributed among these distances:
83 3 0.01
84 53 0.26
85 10 0.05
86 4 0.02
87 8 0.04
88 27 0.13
89 90 0.45
90 6 0.03
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (88 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCATCTTCAGTCTGCCCCACTGCAACTTCAG
AGAGATAAGACTTGCTTACTTAG
Found at i:58177517 original size:217 final size:217
Alignment explanation
Indices: 58177137--58177742 Score: 1032
Period size: 217 Copynumber: 2.8 Consensus size: 217
58177127 TAGGAATTAG
* * * * * * * *
58177137 TGCCTTCTTCAGTCTACCTCGCTGTAACTTCAGGAGGATAAGACTTGCTTATTTAGTATGCTTCA
1 TGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCA
* * * *
58177202 CTGCAACTTCAAGGAAATAAGACTAGATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATAT
66 CTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCT
58177267 AAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACT
131 AAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACT
58177332 GCAACTTCAGGGAGATAAGACT
196 GCAACTTCAGGGAGATAAGACT
58177354 TGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCA
1 TGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCA
* *
58177419 CTGCAACTTCAGGGAGATAAGATTTGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCT
66 CTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCT
*
58177484 AAGGTTTTAATTCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACT
131 AAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACT
58177549 GCAACTTCAGGGAGATAAGACT
196 GCAACTTCAGGGAGATAAGACT
* * *
58177571 TGCCATCTTCAGTTTGCCCCACTACAACTTTAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCA
1 TGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCA
*
58177636 CTGCAACTTCAGAGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCT
66 CTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCT
*
58177701 AAGGTTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGAT
131 AAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGAT
58177743 CTACAATCTT
Statistics
Matches: 366, Mismatches: 23, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
217 366 1.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (217 bp):
TGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCA
CTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCT
AAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACT
GCAACTTCAGGGAGATAAGACT
Found at i:58177613 original size:173 final size:175
Alignment explanation
Indices: 58177280--58177738 Score: 458
Period size: 173 Copynumber: 2.6 Consensus size: 175
58177270 GTTTTAATCC
* * * *
58177280 GCTCCACTGCAACTTCAGGGAGATAGGAT-TATCGGCTTTAATCTGCTCCACTGCAACTTCAGGG
1 GCTCCACTGCAACTTCAGAGAGATAAGATCTA-AGGATTTAATCTGCTCCACTGCAACTTCAGGG
* ** * * * *
58177344 AGATAAGACTTGCCATCTTCAGTCTGCCCCACTGCAACTTCA-GGAGGATAAGACTTGCTTACTT
65 AGATAAGA-TT-ACGGCTTTAATCTGCTCCACTGCAACTTCAGGGA-GATAAGACTTGCATACTT
* * * *
58177408 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-ATGC-GA-TCT
127 AGTCTGCCCCACTACAACTTCAGGGAGATAAGACTTGCATACTGAGTCT
* *
58177454 GCT-CTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAAT-TCGCTCCACTGCAACTTCAGGG
1 GCTCCACTGCAACTTCAGAGAGATAAGATCTAAGGATTTAATCT-GCTCCACTGCAACTTCAGGG
*
58177517 AGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCAT-CTTC
65 AGATAAGATTA-CGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-CATACTT-
* * * *
58177581 AGTTTGCCCCACTACAACTTTA-GGAGGATAAGACTTGCTTACTTAGTCT
127 AGTCTGCCCCACTACAACTTCAGGGA-GATAAGACTTGCATACTGAGTCT
*** * *
58177630 GCTCCACTGCAACTTCAGAGAGATAAGA-CT-A-GATGCGATCTGCT-CTCTGCAACTTCAGAGA
1 GCTCCACTGCAACTTCAGAGAGATAAGATCTAAGGATTTAATCTGCTCCACTGCAACTTCAGGGA
* * **
58177691 GATAAGATCTAAGGTTTTAATCCACTCCACTGCAACTTCAGGGAGATA
66 GATAAGAT-TACGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
58177739 GGATCTACAA
Statistics
Matches: 239, Mismatches: 33, Indels: 27
0.80 0.11 0.09
Matches are distributed among these distances:
172 44 0.18
173 145 0.61
174 16 0.07
175 3 0.01
176 8 0.03
177 23 0.10
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (175 bp):
GCTCCACTGCAACTTCAGAGAGATAAGATCTAAGGATTTAATCTGCTCCACTGCAACTTCAGGGA
GATAAGATTACGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCATACTTAGTC
TGCCCCACTACAACTTCAGGGAGATAAGACTTGCATACTGAGTCT
Found at i:58177866 original size:132 final size:132
Alignment explanation
Indices: 58177730--58178118 Score: 670
Period size: 132 Copynumber: 2.9 Consensus size: 132
58177720 CTGCAACTTC
*
58177730 AGGGAGATAGGATCTACAATCTTCAACCTTCTCCGCTGCTGCTAAGGGAGACAAGGCTTGGTGGC
1 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTAAGGGAGACAAGGCTTGGTGGC
*
58177795 TTAAATCTGCTTCCCACTATCTTGGAAAAATAAGATCCGCCGTCTTCGATCTGCTCCACTACTGC
66 TTAAATCTGCTTCCCACTATCTTGGAAAAATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGC
58177860 TT
131 TT
* * *
58177862 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGTTGCTGAGGGAGACAAAGCTTGGTGGC
1 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTAAGGGAGACAAGGCTTGGTGGC
* *
58177927 TTAAATCTGCTTCCCACTATCTTGGAAATATAAGATTCGCCGTCTTTGATCTGCTCCACTACTGC
66 TTAAATCTGCTTCCCACTATCTTGGAAAAATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGC
58177992 TT
131 TT
* *
58177994 AGGGAGATAAGATCTACAATCTTCAACCTTCTTCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGC
1 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTAAGGGAGACAAGGCTTGGTGGC
* * *
58178059 TTAAATCTGCTTCCCACTATCTTAGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACT
66 TTAAATCTGCTTCCCACTATCTTGGAAAAATAAGATTCGCCGTCTTCGATCTGCTCCACT
58178119 GTCAATACAG
Statistics
Matches: 242, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 242 1.00
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (132 bp):
AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTAAGGGAGACAAGGCTTGGTGGC
TTAAATCTGCTTCCCACTATCTTGGAAAAATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGC
TT
Found at i:58179407 original size:14 final size:14
Alignment explanation
Indices: 58179384--58179430 Score: 60
Period size: 14 Copynumber: 3.3 Consensus size: 14
58179374 TTTCTTTCAC
58179384 TTTTATTTTTTGTTT
1 TTTTA-TTTTTGTTT
58179399 TTTTATTTTTGTTT
1 TTTTATTTTTGTTT
*
58179413 TTGTT-TTTTCGTTT
1 TT-TTATTTTTGTTT
58179427 TTTT
1 TTTT
58179431 TAATCTGAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
13 2 0.07
14 21 0.70
15 7 0.23
ACGTcount: A:0.04, C:0.02, G:0.09, T:0.85
Consensus pattern (14 bp):
TTTTATTTTTGTTT
Found at i:58179427 original size:20 final size:20
Alignment explanation
Indices: 58179390--58179428 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
58179380 TCACTTTTAT
*
58179390 TTTTTGTTTTTTTATTTTTG
1 TTTTTGTTTTTTCATTTTTG
*
58179410 TTTTTGTTTTTTCGTTTTT
1 TTTTTGTTTTTTCATTTTT
58179429 TTTAATCTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.03, C:0.03, G:0.10, T:0.85
Consensus pattern (20 bp):
TTTTTGTTTTTTCATTTTTG
Found at i:58185486 original size:19 final size:19
Alignment explanation
Indices: 58185462--58185553 Score: 150
Period size: 19 Copynumber: 4.8 Consensus size: 19
58185452 AAACATATAT
58185462 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
58185481 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
58185500 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
58185519 TCT-AGAATTGCATATCATA
1 TCTAAG-ATTGCATATCATA
58185538 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
58185554 CTCAAAAATT
Statistics
Matches: 67, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
18 2 0.03
19 63 0.94
20 2 0.03
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:58186950 original size:30 final size:30
Alignment explanation
Indices: 58186916--58187059 Score: 141
Period size: 30 Copynumber: 4.8 Consensus size: 30
58186906 TTCCCCAATT
* * * *
58186916 GTCGGCTCTTTTGTGGCTTCTCCATGGACG
1 GTCGGCGCTTTTGCGGCTTCTGCATGGACA
58186946 GTCGGCGCTTTTGCGGCTT-TGGCATGGACA
1 GTCGGCGCTTTTGCGGCTTCT-GCATGGACA
** *
58186976 GTCGGAACTTCTGCGGCTT-TGCATGGACA
1 GTCGGCGCTTTTGCGGCTTCTGCATGGACA
* * *
58187005 ATCGACGTTTTTGCGGCTTCTGCATGGA-A
1 GTCGGCGCTTTTGCGGCTTCTGCATGGACA
* *
58187034 CGTCGGCGCTTCTGTGGCTTCTGCAT
1 -GTCGGCGCTTTTGCGGCTTCTGCAT
58187060 AAACCGTGGG
Statistics
Matches: 93, Mismatches: 18, Indels: 6
0.79 0.15 0.05
Matches are distributed among these distances:
29 24 0.26
30 69 0.74
ACGTcount: A:0.11, C:0.25, G:0.31, T:0.33
Consensus pattern (30 bp):
GTCGGCGCTTTTGCGGCTTCTGCATGGACA
Found at i:58187019 original size:29 final size:29
Alignment explanation
Indices: 58186953--58187032 Score: 92
Period size: 29 Copynumber: 2.7 Consensus size: 29
58186943 ACGGTCGGCG
*
58186953 CTTTTGCGGCTTTGGCATGGACAGTCGGAA
1 CTTTTGCGGCTTT-GCATGGACAATCGGAA
*
58186983 CTTCTGCGGCTTTGCATGGACAATC-G-A
1 CTTTTGCGGCTTTGCATGGACAATCGGAA
58187010 CGTTTTTGCGGCTTCTGCATGGA
1 C--TTTTGCGGCTT-TGCATGGA
58187033 ACGTCGGCGC
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
27 2 0.05
28 1 0.02
29 21 0.48
30 20 0.45
ACGTcount: A:0.15, C:0.23, G:0.30, T:0.33
Consensus pattern (29 bp):
CTTTTGCGGCTTTGCATGGACAATCGGAA
Found at i:58187083 original size:30 final size:30
Alignment explanation
Indices: 58187010--58187085 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 30
58187000 GGACAATCGA
* *
58187010 CGTTTTTGCGGCTTCTGCATGGAACGTCGG
1 CGTTTTTGAGGCTTCTGCATGAAACGTCGG
* * * *
58187040 CGCTTCTGTGGCTTCTGCAT-AAACCGTGGG
1 CGTTTTTGAGGCTTCTGCATGAAA-CGTCGG
58187070 CGTTTTTGAGGCTTCT
1 CGTTTTTGAGGCTTCT
58187086 AGTTCTCCAT
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
29 2 0.05
30 35 0.95
ACGTcount: A:0.11, C:0.24, G:0.30, T:0.36
Consensus pattern (30 bp):
CGTTTTTGAGGCTTCTGCATGAAACGTCGG
Found at i:58187943 original size:105 final size:102
Alignment explanation
Indices: 58187758--58188031 Score: 266
Period size: 105 Copynumber: 2.6 Consensus size: 102
58187748 CTCTTTTTAT
*
58187758 TTTGTATAAAGTGGGTGCCGGCCATTGCCAGGCCACCCCTAATTTTTTTTTTACTTTTTTCTTAT
1 TTTGTATAAAG-GGGTGCC-GCCATTGCCAGGCCACCCC-AATTTTTTTTTTACTTTTTTCGTAT
**** * *
58187823 ACCGGTGTTGGCAATTGTCACACCAAAA-GTAAAAAAAAAA
63 ACCGGTGCAACCAATT-ACACAACAAAATGTAAAAAAAAAA
* *
58187863 TTTGTATAAAGGGGTTGCCTGCCATTGCCAGGCCACCCCAATTGTTTTTTTACTTTTTTCGTATG
1 TTTGTATAAAGGGG-TGCC-GCCATTGCCAGGCCACCCCAATTTTTTTTTTACTTTTTTCGTATA
* * ***
58187928 CTGGTGCCAACCAATTACACAACAAAATTTTAAAAAAAGGT
64 CCGGTG-CAACCAATTACACAACAAAA-TGTAAAAAAAAAA
* ** *
58187969 TATTGTAGGATGGGGGTGTCGACCATTGCCAGGCCA--CCAATTTTTTTTTTACTTTTTTCGTAT
1 T-TTGTA-TAAAGGGGTGCCG-CCATTGCCAGGCCACCCCAATTTTTTTTTTACTTTTTTCGTAT
58188032 TTTGGTGCTG
Statistics
Matches: 142, Mismatches: 20, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
104 40 0.28
105 65 0.46
106 10 0.07
107 22 0.15
108 5 0.04
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (102 bp):
TTTGTATAAAGGGGTGCCGCCATTGCCAGGCCACCCCAATTTTTTTTTTACTTTTTTCGTATACC
GGTGCAACCAATTACACAACAAAATGTAAAAAAAAAA
Found at i:58189917 original size:30 final size:30
Alignment explanation
Indices: 58189845--58189975 Score: 120
Period size: 30 Copynumber: 4.4 Consensus size: 30
58189835 GCTCTTTTGT
*
58189845 GGCTTCTGCATGGACAGTCGGCACTTCTGC
1 GGCTTCTGCATGGACAGTCGCCACTTCTGC
58189875 GGCTT-TGGCATGGACAGTCGCCACTTCTGC
1 GGCTTCT-GCATGGACAGTCGCCACTTCTGC
* * * ** **
58189905 GGCTTCTCCATGGACAATCGACGTTTCTAT
1 GGCTTCTGCATGGACAGTCGCCACTTCTGC
* * * * *
58189935 GGCTTCTGCATGGTCCGTCGGCGCTTCTGT
1 GGCTTCTGCATGGACAGTCGCCACTTCTGC
*
58189965 GGCTTTTGCAT
1 GGCTTCTGCAT
58189976 AAACCGTGGG
Statistics
Matches: 83, Mismatches: 16, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
29 1 0.01
30 81 0.98
31 1 0.01
ACGTcount: A:0.12, C:0.28, G:0.28, T:0.31
Consensus pattern (30 bp):
GGCTTCTGCATGGACAGTCGCCACTTCTGC
Found at i:58190974 original size:100 final size:100
Alignment explanation
Indices: 58190671--58191059 Score: 394
Period size: 102 Copynumber: 3.8 Consensus size: 100
58190661 TCTTTCTATT
* *
58190671 TTGTATAAAGTCGGTGCCGGCCATTGCCAGGCCACCCCTAA-CTTTTTTTACTTTTTTCGTATAC
1 TTGTATAAAG-GGGTGCCGGCCATTGCCAGGCCACCCC-AATTTTTTTTTACTTTTTTCGTATAC
**
58190735 TGGTGCCGGCAATTGTTACACCAAAAGTAAAAAAAATTTA
64 TGGTG-CGGCAATTGACACACCAAAAGTAAAAAAAA--TA
* * * ** *
58190775 TCGTATAAAGGGGGTGCCTGCTATTTTCAGGCCACCCCAAATTTTTTTTTACTTTTTTCTTATAC
1 TTGTATAAA-GGGGTGCCGGCCATTGCCAGGCCACCCC-AATTTTTTTTTACTTTTTTCGTATAC
* * *
58190840 TGGTGCTGGCCATTGACAGAGCAAAAGTAAAAAAAA-A
64 TGGTGC-GGCAATTGACACACCAAAAGTAAAAAAAATA
* *
58190877 TTGTATAAATGGGGTGCCGGCCATTGCCAGGCCACCCGAA-TTTTTTTTACTTTTTTCGTATGCT
1 TTGTATAAA-GGGGTGCCGGCCATTGCCAGGCCACCCCAATTTTTTTTTACTTTTTTCGTATACT
58190941 GGTGTCGGCTAATT-ACACACCAAAAGTAAAAAAAATTA
65 GGTG-CGGC-AATTGACACACCAAAAGTAAAAAAAA-TA
** * * * ** *
58190979 TTGTAGGAAGTGGGTGTCGACTATTGCCAAACCA--CCAATTTTTTTTTTACTTTTTTCGTATTC
1 TTGTATAAAG-GGGTGCCGGCCATTGCCAGGCCACCCCAA-TTTTTTTTTACTTTTTTCGTATAC
58191042 TGGTGCTGGCAATTGACA
64 TGGTGC-GGCAATTGACA
58191060 AATCCACATC
Statistics
Matches: 238, Mismatches: 35, Indels: 26
0.80 0.12 0.09
Matches are distributed among these distances:
100 51 0.21
101 12 0.05
102 91 0.38
104 33 0.14
105 51 0.21
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (100 bp):
TTGTATAAAGGGGTGCCGGCCATTGCCAGGCCACCCCAATTTTTTTTTACTTTTTTCGTATACTG
GTGCGGCAATTGACACACCAAAAGTAAAAAAAATA
Found at i:58191659 original size:109 final size:106
Alignment explanation
Indices: 58191574--58191870 Score: 324
Period size: 109 Copynumber: 2.7 Consensus size: 106
58191564 TTTTCGGGTG
*
58191574 TTATTCTGTCAATGGCCGGCACCAGAATACGAAAAAATTAAAAAAAAAATTTTGGGGGTGGCTTG
1 TTATTCTGTCAATGGCCGGCACCAGAATACGAAAAAATTAAAAAAAAAATTTT-GGGGTGGCCTG
*
58191639 GCAATGGCCGGCACCCCCTTTCTACAATAAAATATATGTTTTTTTACTT
65 GCAATGGCCGGCACCCCCTTTATAC----AAAT-T-T-TTTTTTTACTT
** * * * * *
58191688 TTGGTGTATCAATGGCCGGCACCAGCATACGAAAAAAATAAAAAAACAAAAATTTTTGGGTGGCC
1 TTATTCTGTCAATGGCCGGCACCAGAATACG-AAAAAAT-TAAAAA-AAAAATTTTGGGGTGGCC
* * * **
58191753 TAGCAATAGCCAGCACCCTTTTTATACAAATTTTTTTTTTACTT
63 TGGCAATGGCCGGCACCCCCTTTATACAAATTTTTTTTTTACTT
* ** * *
58191797 TTATTCTGTCAATAGCCGGCACCAGTGTACGAAAAAAGTAAAAAAAAAAATTTGGGGTGGCCTGG
1 TTATTCTGTCAATGGCCGGCACCAGAATACGAAAAAATTAAAAAAAAAATTTTGGGGTGGCCTGG
58191862 CAATGGCCG
66 CAATGGCCG
58191871 ACATCCTTTT
Statistics
Matches: 152, Mismatches: 28, Indels: 14
0.78 0.14 0.07
Matches are distributed among these distances:
106 25 0.16
107 5 0.03
108 6 0.04
109 35 0.23
110 1 0.01
111 1 0.01
112 4 0.03
114 26 0.17
115 7 0.05
116 33 0.22
117 9 0.06
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (106 bp):
TTATTCTGTCAATGGCCGGCACCAGAATACGAAAAAATTAAAAAAAAAATTTTGGGGTGGCCTGG
CAATGGCCGGCACCCCCTTTATACAAATTTTTTTTTTACTT
Found at i:58193251 original size:30 final size:30
Alignment explanation
Indices: 58193217--58193350 Score: 133
Period size: 30 Copynumber: 4.5 Consensus size: 30
58193207 ATTGTCGGCT
*
58193217 CTTCTGTGGCTTTTGCATGGACAGTCGACG
1 CTTCTGTGGCTTCTGCATGGACAGTCGACG
** * * *
58193247 CTTCTGCAGCTTCAGCATGGACAGTCGGCA
1 CTTCTGTGGCTTCTGCATGGACAGTCGACG
* *
58193277 CTTCTGTAGCTTCTGCATGGACAGTCGATG
1 CTTCTGTGGCTTCTGCATGGACAGTCGACG
* * * * * *
58193307 TTTCTGCGGCTTCTACATGGTCCGTCGGCG
1 CTTCTGTGGCTTCTGCATGGACAGTCGACG
*
58193337 CTTCTATGGCTTCT
1 CTTCTGTGGCTTCT
58193351 ACATAAACCG
Statistics
Matches: 82, Mismatches: 22, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
30 82 1.00
ACGTcount: A:0.13, C:0.27, G:0.27, T:0.33
Consensus pattern (30 bp):
CTTCTGTGGCTTCTGCATGGACAGTCGACG
Found at i:58193303 original size:60 final size:60
Alignment explanation
Indices: 58193210--58193350 Score: 176
Period size: 60 Copynumber: 2.4 Consensus size: 60
58193200 TTTCTCAATT
* *
58193210 GTCGGCTCTTCTGTGGCTTTTGCATGGACAGTCGACGCTTCTGCAGCTTC-AGCATGGACA
1 GTCGGCACTTCTGTGGCTTCTGCATGGACAGTCGACGCTTCTGCAGCTTCTA-CATGGACA
* * * * * *
58193270 GTCGGCACTTCTGTAGCTTCTGCATGGACAGTCGATGTTTCTGCGGCTTCTACATGGTCC
1 GTCGGCACTTCTGTGGCTTCTGCATGGACAGTCGACGCTTCTGCAGCTTCTACATGGACA
* *
58193330 GTCGGCGCTTCTATGGCTTCT
1 GTCGGCACTTCTGTGGCTTCT
58193351 ACATAAACCG
Statistics
Matches: 69, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
60 68 0.99
61 1 0.01
ACGTcount: A:0.13, C:0.27, G:0.28, T:0.33
Consensus pattern (60 bp):
GTCGGCACTTCTGTGGCTTCTGCATGGACAGTCGACGCTTCTGCAGCTTCTACATGGACA
Found at i:58202441 original size:21 final size:21
Alignment explanation
Indices: 58202390--58202441 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
58202380 ACCATTGTTT
*
58202390 CTAATCTCACTGCTACAGTAT
1 CTAATCTCACTGCTACAGTAA
*
58202411 CCAATCTCACTGCTACAGTAA
1 CTAATCTCACTGCTACAGTAA
*
58202432 CTAATGTCAC
1 CTAATCTCAC
58202442 CGCCACCGCT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.31, C:0.31, G:0.10, T:0.29
Consensus pattern (21 bp):
CTAATCTCACTGCTACAGTAA
Found at i:58202776 original size:154 final size:154
Alignment explanation
Indices: 58202496--58202793 Score: 524
Period size: 154 Copynumber: 1.9 Consensus size: 154
58202486 ATCCAAACTA
* * *
58202496 AGGGTGATTTTGGATGGGCGGTGCGTTTACCTGCGGTTAGTGTAAAAACAGCGGTGGTGGTGAGA
1 AGGGTGAGTTTGGATGGGCGGTGCGTTTACCTACGGTTAGTGTAAAAACAGCGGTGGCGGTGAGA
* * *
58202561 TTAGATACTGTAGCGATACTGTAGCGTGAGACAAAAAGTAAGCTAAACGCACCGCACCCAATCGC
66 TTAGATACTGTAGCAATACTATAGCGTGAGACAAAAAATAAGCTAAACGCACCGCACCCAATCGC
58202626 CCATCCAAACCCACACTAAGCCTT
131 CCATCCAAACCCACACTAAGCCTT
*
58202650 AGGGTGAGTTTGGATGGGCGGTGCGTTTACCTACGGTTAGTGTAAAAATAGCGGTGGCGGTGAGA
1 AGGGTGAGTTTGGATGGGCGGTGCGTTTACCTACGGTTAGTGTAAAAACAGCGGTGGCGGTGAGA
*
58202715 TTAGATACTGTAGCAATACTATAGCGTGAGACAAAAAATAGGCTAAACGCACCGCACCCAATCGC
66 TTAGATACTGTAGCAATACTATAGCGTGAGACAAAAAATAAGCTAAACGCACCGCACCCAATCGC
58202780 CCATCCAAACCCAC
131 CCATCCAAACCCAC
58202794 CTTAGTCCAC
Statistics
Matches: 136, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
154 136 1.00
ACGTcount: A:0.30, C:0.22, G:0.27, T:0.21
Consensus pattern (154 bp):
AGGGTGAGTTTGGATGGGCGGTGCGTTTACCTACGGTTAGTGTAAAAACAGCGGTGGCGGTGAGA
TTAGATACTGTAGCAATACTATAGCGTGAGACAAAAAATAAGCTAAACGCACCGCACCCAATCGC
CCATCCAAACCCACACTAAGCCTT
Done.