Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 317 of 343
Found at i:102559147 original size:16 final size:16
Alignment explanation
Indices: 102559126--102559158 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
102559116 TTTGTTAATC
102559126 AATTCTCAATTGAGTT
1 AATTCTCAATTGAGTT
102559142 AATTCTCAATTGAGTT
1 AATTCTCAATTGAGTT
102559158 A
1 A
102559159 TTGTACCGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (16 bp):
AATTCTCAATTGAGTT
Found at i:102562210 original size:26 final size:23
Alignment explanation
Indices: 102562143--102562211 Score: 68
Period size: 26 Copynumber: 2.9 Consensus size: 23
102562133 TTATTGAATT
*
102562143 TATATTATAAATTTTATT-TAAA
1 TATATTATAAATTTAATTATAAA
*
102562165 TATATTATAAAAATTAATTATATAA
1 TATATTAT-AAATTTAATTATA-AA
*
102562190 TATAATTATATAATTTGATTAT
1 TAT-ATTATA-AATTTAATTAT
102562212 TGTAAATATT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
22 8 0.21
23 8 0.21
24 2 0.05
25 6 0.16
26 14 0.37
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (23 bp):
TATATTATAAATTTAATTATAAA
Found at i:102562211 original size:13 final size:13
Alignment explanation
Indices: 102562179--102562203 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
102562169 TTATAAAAAT
102562179 TAATTATATAATA
1 TAATTATATAATA
102562192 TAATTATATAAT
1 TAATTATATAAT
102562204 TTGATTATTG
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TAATTATATAATA
Found at i:102563154 original size:31 final size:31
Alignment explanation
Indices: 102563093--102563155 Score: 76
Period size: 31 Copynumber: 2.0 Consensus size: 31
102563083 TGCATGATTA
* *
102563093 TATATATGAAACTTTAGTTTCAACTTTATAC
1 TATATATGAAACTTGAGTTTCAACTATATAC
102563124 TATATA-GAAACTTGAGATTT-AATCTATATAC
1 TATATATGAAACTTGAG-TTTCAA-CTATATAC
102563155 T
1 T
102563156 TTATTTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 11 0.39
31 17 0.61
ACGTcount: A:0.38, C:0.11, G:0.08, T:0.43
Consensus pattern (31 bp):
TATATATGAAACTTGAGTTTCAACTATATAC
Found at i:102565722 original size:35 final size:35
Alignment explanation
Indices: 102565676--102565747 Score: 108
Period size: 35 Copynumber: 2.1 Consensus size: 35
102565666 CATCTCCGGA
* *
102565676 GCTTGGCAAATATGGAAAGTAATCTTCAAATATAT
1 GCTTGGCAAATATGGAAAGGAATCTTCAAAGATAT
* *
102565711 GCTTGGCAAATATGGAAGGGGATCTTCAAAGATAT
1 GCTTGGCAAATATGGAAAGGAATCTTCAAAGATAT
102565746 GC
1 GC
102565748 GATCCTAGAC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.28
Consensus pattern (35 bp):
GCTTGGCAAATATGGAAAGGAATCTTCAAAGATAT
Found at i:102575909 original size:43 final size:43
Alignment explanation
Indices: 102575848--102575932 Score: 170
Period size: 43 Copynumber: 2.0 Consensus size: 43
102575838 TTAATAAAAA
102575848 GTAAATAGTTTTTAAACTTTGTATAGAAATTGCAATGATATTT
1 GTAAATAGTTTTTAAACTTTGTATAGAAATTGCAATGATATTT
102575891 GTAAATAGTTTTTAAACTTTGTATAGAAATTGCAATGATATT
1 GTAAATAGTTTTTAAACTTTGTATAGAAATTGCAATGATATT
102575933 GTACCCTTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.38, C:0.05, G:0.14, T:0.44
Consensus pattern (43 bp):
GTAAATAGTTTTTAAACTTTGTATAGAAATTGCAATGATATTT
Found at i:102580780 original size:8 final size:9
Alignment explanation
Indices: 102580752--102580789 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
102580742 CAACTTAATT
102580752 TATATTAAA
1 TATATTAAA
*
102580761 TAAATATAAA
1 TATAT-TAAA
102580771 TAT-TTAAA
1 TATATTAAA
102580779 TATATTAAA
1 TATATTAAA
102580788 TA
1 TA
102580790 AATTTGAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
8 7 0.28
9 12 0.48
10 6 0.24
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
TATATTAAA
Found at i:102583222 original size:29 final size:30
Alignment explanation
Indices: 102583155--102583233 Score: 83
Period size: 31 Copynumber: 2.6 Consensus size: 30
102583145 AATTAAATCA
*
102583155 AAATCAAAGTTTTATGTATATATATGAACC
1 AAATCAAAGTTTCATGTATATATATGAACC
* *
102583185 ACAAGTC-AAGTTTCATGTGTATA-ATTATACC
1 A-AA-TCAAAGTTTCATGTATATATATGA-ACC
102583216 AAATCAAAG-TTCATGTAT
1 AAATCAAAGTTTCATGTAT
102583234 CAAATTATAA
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
29 10 0.24
30 9 0.22
31 20 0.49
32 2 0.05
ACGTcount: A:0.41, C:0.13, G:0.11, T:0.35
Consensus pattern (30 bp):
AAATCAAAGTTTCATGTATATATATGAACC
Found at i:102594357 original size:6 final size:6
Alignment explanation
Indices: 102594346--102594376 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
102594336 ATTGGTATGT
102594346 TAATTA TAATTA TAATTA TAATTA TAATTA T
1 TAATTA TAATTA TAATTA TAATTA TAATTA T
102594377 GGTTAAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TAATTA
Found at i:102594390 original size:18 final size:17
Alignment explanation
Indices: 102594347--102594401 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 17
102594337 TTGGTATGTT
**
102594347 AATTATAATTATAATTA
1 AATTATAATTATGGTTA
102594364 TAATTATAATTATGGTTA
1 -AATTATAATTATGGTTA
102594382 AATTAATAAATTATGGTTA
1 AATT-AT-AATTATGGTTA
102594401 A
1 A
102594402 TGATACAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
17 4 0.12
18 17 0.52
19 12 0.36
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.45
Consensus pattern (17 bp):
AATTATAATTATGGTTA
Found at i:102600925 original size:37 final size:37
Alignment explanation
Indices: 102600878--102600948 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 37
102600868 TCTCCACGTG
* *
102600878 CGTCTGACACTCCATTGCGGCCATATGCAAAAAACCA
1 CGTCTGACACTCCACTACGGCCATATGCAAAAAACCA
* *
102600915 CGTCTGACACTCCACTACGGCCATCTGTAAAAAA
1 CGTCTGACACTCCACTACGGCCATATGCAAAAAA
102600949 ACCAACACAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.32, C:0.32, G:0.15, T:0.20
Consensus pattern (37 bp):
CGTCTGACACTCCACTACGGCCATATGCAAAAAACCA
Found at i:102602159 original size:16 final size:18
Alignment explanation
Indices: 102602121--102602166 Score: 64
Period size: 16 Copynumber: 2.8 Consensus size: 18
102602111 TATGTATACA
102602121 TATTTTTATCTATTTCAT
1 TATTTTTATCTATTTCAT
102602139 T-TTTTTATCT-TTT-AT
1 TATTTTTATCTATTTCAT
102602154 TATTTTTAT-TATT
1 TATTTTTATCTATT
102602167 ATCTATTATG
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 4 0.15
16 12 0.46
17 9 0.35
18 1 0.04
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.74
Consensus pattern (18 bp):
TATTTTTATCTATTTCAT
Found at i:102602173 original size:16 final size:17
Alignment explanation
Indices: 102602121--102602173 Score: 58
Period size: 16 Copynumber: 3.2 Consensus size: 17
102602111 TATGTATACA
102602121 TATTTTTATCTATT-TC
1 TATTTTTATCTATTATC
* *
102602137 ATTTTTTTATCTTTTAT-
1 -TATTTTTATCTATTATC
102602154 TATTTTTAT-TATTATC
1 TATTTTTATCTATTATC
102602170 TATT
1 TATT
102602174 ATGTATTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
15 5 0.17
16 12 0.40
17 12 0.40
18 1 0.03
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.72
Consensus pattern (17 bp):
TATTTTTATCTATTATC
Found at i:102602386 original size:12 final size:12
Alignment explanation
Indices: 102602343--102602394 Score: 61
Period size: 12 Copynumber: 4.2 Consensus size: 12
102602333 TATAATCGGC
102602343 TTCTTTTATTTA
1 TTCTTTTATTTA
102602355 TTTTCTTTTATTGTA
1 --TTCTTTTATT-TA
*
102602370 -CCTTTTATTTA
1 TTCTTTTATTTA
102602381 TTCTTTTATTTA
1 TTCTTTTATTTA
102602393 TT
1 TT
102602395 TGCTACTTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
11 2 0.06
12 20 0.59
14 10 0.29
15 2 0.06
ACGTcount: A:0.15, C:0.10, G:0.02, T:0.73
Consensus pattern (12 bp):
TTCTTTTATTTA
Found at i:102604312 original size:19 final size:19
Alignment explanation
Indices: 102604288--102604333 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
102604278 GACGCCTCTT
102604288 TTTGCATT-CATCCCATGCA
1 TTTGCATTGCATCCCAT-CA
*
102604307 TTTGCATTGCATCGCATCA
1 TTTGCATTGCATCCCATCA
*
102604326 TATGCATT
1 TTTGCATT
102604334 ATATTTCACA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.22, C:0.26, G:0.13, T:0.39
Consensus pattern (19 bp):
TTTGCATTGCATCCCATCA
Found at i:102610782 original size:44 final size:44
Alignment explanation
Indices: 102610699--102611148 Score: 245
Period size: 44 Copynumber: 10.0 Consensus size: 44
102610689 GTTATCATGG
* * * *
102610699 CAAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCTA
1 CAAACCTTATCTCCCTGAAGTTACAGTGGAACAGATTGAAGCTA
* * * * *
102610743 TAAACCTTATCTCCCTGAAGTTCCAGTAGAACAGGTTGAAGTTA
1 CAAACCTTATCTCCCTGAAGTTACAGTGGAACAGATTGAAGCTA
** * ** * * *
102610787 CAAGTCTTATCTCCTTGAAGTTGTAGTGGAATAGACTGAAGATA
1 CAAACCTTATCTCCCTGAAGTTACAGTGGAACAGATTGAAGCTA
* * * * * *
102610831 GCAAATCTTATCTCTCTAAAGTTACAGTAGAACAAATTAAAGCTA
1 -CAAACCTTATCTCCCTGAAGTTACAGTGGAACAGATTGAAGCTA
* * * **
102610876 TAAACCTTATCTCCCTGAAGTTACAGTGGAACAGGTTAAAAATAAA
1 CAAACCTTATCTCCCTGAAGTTACAGTGGAACAGATTGAAGCT--A
** * * **
102610922 CAAAATTTATCTCCCTAAAGTTGCAGTGGAGTAGATTGAAGATAGACTA
1 CAAACCTTATCTCCCTGAAGTTACAGTGGAACAGATT---GA-AG-CTA
* * * * * * *
102610971 CAAATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTAAAGCCA
1 CAAACCTTATCTCCCTGAAGTTACAGTGGAACAGATTGAAGCTA
* * * * * * *
102611015 CGAACCTTATCACTCTGAAGTTGCAGCGGAGCATG-TTGAAGTTA
1 CAAACCTTATCTCCCTGAAGTTACAGTGGAACA-GATTGAAGCTA
** * * * * * *
102611059 CAAGTCTTATCTCCCTAAAGTTGCAGTAGAGCAGACTGAAGATAA
1 CAAACCTTATCTCCCTGAAGTTACAGTGGAACAGATTGAAGCT-A
* * * * * *
102611104 CGAATCTTATTTCCTTGAAGTTGCAGTGGAACAGATTAAAGCTA
1 CAAACCTTATCTCCCTGAAGTTACAGTGGAACAGATTGAAGCTA
102611148 C
1 C
102611149 GAGTTACAAG
Statistics
Matches: 308, Mismatches: 87, Indels: 22
0.74 0.21 0.05
Matches are distributed among these distances:
43 1 0.00
44 170 0.55
45 69 0.22
46 31 0.10
49 35 0.11
50 1 0.00
51 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.28
Consensus pattern (44 bp):
CAAACCTTATCTCCCTGAAGTTACAGTGGAACAGATTGAAGCTA
Found at i:102610880 original size:133 final size:133
Alignment explanation
Indices: 102610698--102611147 Score: 499
Period size: 133 Copynumber: 3.3 Consensus size: 133
102610688 AGTTATCATG
* * * *
102610698 GCAAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCTATAAACCTTATCTCCCTGAAG
1 GCAAATCTTATCTCCTTAAAGTTGCAGTAGAACAGATTAAAGCTATAAACCTTATCTCCCTGAAG
* * * * * *
102610763 TTCCAGTAGAACAGGTTGAAGTTACAAGTCTTATCTCCTTGAAGTTGTAGTGGAATAGACTGAAG
66 TTACAGTGGAACAGGTTGAAGTTACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGTAGACTGAAG
102610828 ATA
131 ATA
* *
102610831 GCAAATCTTATCT-CTCTAAAGTTACAGTAGAACAAATTAAAGCTATAAACCTTATCTCCCTGAA
1 GCAAATCTTATCTCCT-TAAAGTTGCAGTAGAACAGATTAAAGCTATAAACCTTATCTCCCTGAA
* * * * *
102610895 GTTACAGTGGAACAGGTTAAAAATAAACAAAAT-TTATCTCCCTAAAGTTGCAGTGGAGTAGATT
65 GTTACAGTGGAACAGGTT-GAAGT-TAC-AAGTCTTATCTCCCTAAAGTTGCAGTGGAGTAGACT
102610959 GAAGATA
127 GAAGATA
* * * ** * *
102610966 GACTACAAATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTAAAGCCACGAACCTTATCACTCT
1 G----CAAATCTTATCTCCTTAAAGTTGCAGTAGAACAGATTAAAGCTATAAACCTTATCTCCCT
* * * * * *
102611031 GAAGTTGCAGCGGAGCATGTTGAAGTTACAAGTCTTATCTCCCTAAAGTTGCAGTAGAGCAGACT
62 GAAGTTACAGTGGAACAGGTTGAAGTTACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGTAGACT
102611096 GAAGATA
127 GAAGATA
* * * * *
102611103 ACGAATCTTATTTCCTTGAAGTTGCAGTGGAACAGATTAAAGCTA
1 GCAAATCTTATCTCCTTAAAGTTGCAGTAGAACAGATTAAAGCTA
102611148 CGAGTTACAA
Statistics
Matches: 262, Mismatches: 45, Indels: 20
0.80 0.14 0.06
Matches are distributed among these distances:
132 2 0.01
133 108 0.41
134 3 0.01
135 36 0.14
136 6 0.02
137 37 0.14
138 3 0.01
139 66 0.25
140 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.28
Consensus pattern (133 bp):
GCAAATCTTATCTCCTTAAAGTTGCAGTAGAACAGATTAAAGCTATAAACCTTATCTCCCTGAAG
TTACAGTGGAACAGGTTGAAGTTACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGTAGACTGAAG
ATA
Found at i:102610887 original size:89 final size:88
Alignment explanation
Indices: 102610699--102610909 Score: 233
Period size: 89 Copynumber: 2.4 Consensus size: 88
102610689 GTTATCATGG
* * * * * *
102610699 CAAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCTATAAACCTTATCTCCCTGAAGT
1 CAAACCTTATCTCCTTGAAGTTGCAGTGGAACAGACTGAAGATACAAACCTTATCTCCCTAAAGT
* ** * *
102610764 TCCAGTAGAACAGGTTGAAGTTA
66 TACAGTAGAACAAATTAAAGCTA
** * * * *
102610787 CAAGTCTTATCTCCTTGAAGTTGTAGTGGAATAGACTGAAGATAGCAAATCTTATCTCTCTAAAG
1 CAAACCTTATCTCCTTGAAGTTGCAGTGGAACAGACTGAAGATA-CAAACCTTATCTCCCTAAAG
102610852 TTACAGTAGAACAAATTAAAGCTA
65 TTACAGTAGAACAAATTAAAGCTA
* * *
102610876 TAAACCTTATCTCCCTGAAGTTACAGTGGAACAG
1 CAAACCTTATCTCCTTGAAGTTGCAGTGGAACAG
102610910 GTTAAAAATA
Statistics
Matches: 100, Mismatches: 22, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
88 38 0.38
89 62 0.62
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.29
Consensus pattern (88 bp):
CAAACCTTATCTCCTTGAAGTTGCAGTGGAACAGACTGAAGATACAAACCTTATCTCCCTAAAGT
TACAGTAGAACAAATTAAAGCTA
Found at i:102610949 original size:46 final size:49
Alignment explanation
Indices: 102610881--102611010 Score: 149
Period size: 46 Copynumber: 2.7 Consensus size: 49
102610871 AGCTATAAAC
* * *
102610881 CTTATCTCCCTGAAGTTACAGTGGAACAGGTTAAAAATAAAC-A-AAAT
1 CTTATCTCCCTAAAGTTGCAGTGGAACAGATTAAAAATAAACTACAAAT
** * * *
102610928 -TTATCTCCCTAAAGTTGCAGTGGAGTAGATTGAAGATAGACTACAAAT
1 CTTATCTCCCTAAAGTTGCAGTGGAACAGATTAAAAATAAACTACAAAT
* *
102610976 CTTATCTCCCTAAAGTTGCAGTAGAGCAGATTAAA
1 CTTATCTCCCTAAAGTTGCAGTGGAACAGATTAAA
102611011 GCCACGAACC
Statistics
Matches: 69, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
46 33 0.48
47 1 0.01
48 4 0.06
49 31 0.45
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.28
Consensus pattern (49 bp):
CTTATCTCCCTAAAGTTGCAGTGGAACAGATTAAAAATAAACTACAAAT
Found at i:102611376 original size:44 final size:44
Alignment explanation
Indices: 102611251--102611509 Score: 186
Period size: 44 Copynumber: 5.9 Consensus size: 44
102611241 TGAAACCATT
* * ** * **
102611251 AATCTTATCTCCCTAAAGATACAGTGGAGCAGATT-AAAACCACA
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGA-TGCA
* * * * * * *
102611295 AACCTTATTTCCTTAAAGTTGTAGTAGAGCA-AGTTGAAGTTACA
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGA-TTGAAGATGCA
* * *
102611339 AATCTTATCTCCCTGAAGTTGTAGTAGAGTAGATTGAAGATGGCG
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGAT-GCA
* *
102611384 AATTTTATCTCCTTGAAGTT-TCAGTGGAGCAGATTGAAGATGC-
1 AATCTTATCTCCCTGAAGTTGT-AGTGGAGCAGATTGAAGATGCA
* * * * *
102611427 GATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTGTAGATGCG
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGATGCA
* * * *
102611471 AGTC-TAGTCTCCCTAAAGTTATAGTGGAGTAGATTGAAG
1 AATCTTA-TCTCCCTGAAGTTGTAGTGGAGCAGATTGAAG
102611510 CACTAATTCC
Statistics
Matches: 171, Mismatches: 36, Indels: 16
0.77 0.16 0.07
Matches are distributed among these distances:
43 38 0.22
44 94 0.55
45 39 0.23
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.31
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGATGCA
Found at i:102611418 original size:45 final size:44
Alignment explanation
Indices: 102611340--102611509 Score: 186
Period size: 43 Copynumber: 3.9 Consensus size: 44
102611330 GAAGTTACAA
* *
102611340 ATCTTATCTCCCTGAAGTTGTAGTAGAGTAGATTGAAGATGGCG
1 ATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGATGGCG
* *
102611384 AATTTTATCTCCTTGAAGTT-TCAGTGGAGCAGATTGAAGAT-GCG
1 -ATCTTATCTCCCTGAAGTTGT-AGTGGAGCAGATTGAAGATGGCG
* * *
102611428 ATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTGTAGAT-GCG
1 ATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGATGGCG
* * *
102611471 AGTC-TAGTCTCCCTAAAGTTATAGTGGAGTAGATTGAAG
1 A-TCTTA-TCTCCCTGAAGTTGTAGTGGAGCAGATTGAAG
102611510 CACTAATTCC
Statistics
Matches: 106, Mismatches: 15, Indels: 9
0.82 0.12 0.07
Matches are distributed among these distances:
43 39 0.37
44 33 0.31
45 34 0.32
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.33
Consensus pattern (44 bp):
ATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGATGGCG
Found at i:102614448 original size:14 final size:14
Alignment explanation
Indices: 102614431--102614459 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
102614421 CTATTTTATG
102614431 TGTTTGTTTTTTTC
1 TGTTTGTTTTTTTC
102614445 TGTTTGTTTTTTTC
1 TGTTTGTTTTTTTC
102614459 T
1 T
102614460 TTACTCTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.00, C:0.07, G:0.14, T:0.79
Consensus pattern (14 bp):
TGTTTGTTTTTTTC
Found at i:102614522 original size:37 final size:37
Alignment explanation
Indices: 102614481--102614556 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
102614471 ATATTTGAAC
102614481 TTAACATTATGTATACATATTTTATCTATTTCATTTT
1 TTAACATTATGTATACATATTTTATCTATTTCATTTT
102614518 TTAACATTATGTATACATATTTTATCTATTTCATTTT
1 TTAACATTATGTATACATATTTTATCTATTTCATTTT
102614555 TT
1 TT
102614557 TATCTTCTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.29, C:0.11, G:0.03, T:0.58
Consensus pattern (37 bp):
TTAACATTATGTATACATATTTTATCTATTTCATTTT
Found at i:102614578 original size:19 final size:18
Alignment explanation
Indices: 102614539--102614588 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 18
102614529 TATACATATT
102614539 TTATCTATTTCATTTTTTTA
1 TTATCTA-TT-ATTTTTTTA
102614559 TCT-TCTATTATTTTTATTA
1 T-TATCTATTATTTTT-TTA
102614578 TTATCTATTAT
1 TTATCTATTAT
102614589 GTATTTATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
18 7 0.26
19 14 0.52
20 5 0.19
21 1 0.04
ACGTcount: A:0.22, C:0.10, G:0.00, T:0.68
Consensus pattern (18 bp):
TTATCTATTATTTTTTTA
Found at i:102617944 original size:21 final size:21
Alignment explanation
Indices: 102617920--102617984 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
102617910 CATTCACACA
* *
102617920 GGCATGTATAACTTCTACATG
1 GGCATGTGTAACTTCCACATG
102617941 GGCATGTGTAACTTCCACATG
1 GGCATGTGTAACTTCCACATG
*
102617962 GGCATGTGTAACTTCCATATG
1 GGCATGTGTAACTTCCACATG
102617983 GG
1 GG
102617985 TGTGTAGACC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.31
Consensus pattern (21 bp):
GGCATGTGTAACTTCCACATG
Found at i:102627515 original size:31 final size:32
Alignment explanation
Indices: 102627468--102627543 Score: 136
Period size: 31 Copynumber: 2.4 Consensus size: 32
102627458 ACGTTATTCA
102627468 TTTTCTTTCTTGCTCTCTGCCACTTTTTCCCT
1 TTTTCTTTCTTGCTCTCTGCCACTTTTTCCCT
102627500 TTTTCTTT-TTGCTCTCTGCCACTTTTTCCCT
1 TTTTCTTTCTTGCTCTCTGCCACTTTTTCCCT
*
102627531 TTCTCTTTCTTGC
1 TTTTCTTTCTTGC
102627544 CGTCGAATTT
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
31 30 0.71
32 12 0.29
ACGTcount: A:0.03, C:0.33, G:0.07, T:0.58
Consensus pattern (32 bp):
TTTTCTTTCTTGCTCTCTGCCACTTTTTCCCT
Found at i:102634457 original size:32 final size:32
Alignment explanation
Indices: 102634414--102634492 Score: 117
Period size: 32 Copynumber: 2.5 Consensus size: 32
102634404 TCTGAAGTTA
102634414 TTCC-TTTTCTTTCTTG-TTCTCTGCCACTTTT
1 TTCCTTTTTCTTTCTTGCTT-TCTGCCACTTTT
102634445 TTCCTTTTTCTTTCTTGCTTTCTGCCACTTTT
1 TTCCTTTTTCTTTCTTGCTTTCTGCCACTTTT
* *
102634477 TCCCTTTTTCCTTCTT
1 TTCCTTTTTCTTTCTT
102634493 ACCTCTATTT
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
31 4 0.09
32 38 0.86
33 2 0.05
ACGTcount: A:0.03, C:0.30, G:0.05, T:0.62
Consensus pattern (32 bp):
TTCCTTTTTCTTTCTTGCTTTCTGCCACTTTT
Found at i:102635817 original size:23 final size:22
Alignment explanation
Indices: 102635769--102635822 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
102635759 TCAAAGGGTT
*
102635769 TTTTTCGAAAGTACGAACTGGA
1 TTTTTCAAAAGTACGAACTGGA
102635791 TTTTTCAAAAGTACGAACTGGA
1 TTTTTCAAAAGTACGAACTGGA
102635813 TTTTTCAAAA
1 TTTTTCAAAA
102635823 TATAACGATT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (22 bp):
TTTTTCAAAAGTACGAACTGGA
Found at i:102638606 original size:16 final size:17
Alignment explanation
Indices: 102638587--102638619 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
102638577 TAAATTATAT
102638587 AAAAAT-TAAAAATTAA
1 AAAAATATAAAAATTAA
*
102638603 AAAAATATAAAATTTAA
1 AAAAATATAAAAATTAA
102638620 CAATACATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (17 bp):
AAAAATATAAAAATTAA
Found at i:102646497 original size:205 final size:206
Alignment explanation
Indices: 102646114--102646521 Score: 665
Period size: 205 Copynumber: 2.0 Consensus size: 206
102646104 GTAATTGTCG
* * * *
102646114 TTGGCGGTAAGTGAGTTTCGTATTGTTTCCTTTATATCGAATTTGTTAGTAAATATGTTAAATCG
1 TTGGCGGTAAGTGAGTTTCGTATTGTTTCCTTTATATCAAATTTGTTAGTAAACATATTAAATCA
102646179 TTGATGGCTATTCTATTTTTAGGCTTTTGGAAGGCTTAGGATTACGTTAACAACGAAAATGAACC
66 TTGATGGCTATTCTATTTTTAGGCTTTTGGAAGGCTTAGGATTACGTTAACAACGAAAATGAACC
* * ** *
102646244 AGGTATATACCCAAAACGTAAAAATCAAGCTTTCGAAAAAAGTCAAAAAAGGCCACTGTTGATGC
131 AGGTATATACCCAAAACATAAAAATCAAGCTTTCAAAAAAAGTCAAAAAAGGCCACTGTCCACGC
102646309 CACACGGGTGA
196 CACACGGGTGA
*
102646320 TTGGCGGTAAGTGAGTTTCGTATTGTTTCCTTTATATCAAATTTGTTAGTAAACCTATTAAATCA
1 TTGGCGGTAAGTGAGTTTCGTATTGTTTCCTTTATATCAAATTTGTTAGTAAACATATTAAATCA
* *
102646385 TTGATGGCTATTCTA-TTTTAGGCTTTTGGAAGGCTTAGGATTACGTTAGCAGCGAAAATGAACC
66 TTGATGGCTATTCTATTTTTAGGCTTTTGGAAGGCTTAGGATTACGTTAACAACGAAAATGAACC
* * * *
102646449 AGGTGTGTACCCGAAACATAAAAATCGAGCTTTCAAAAAAAGTCAAAAAAGGCCACTGTCCACGC
131 AGGTATATACCCAAAACATAAAAATCAAGCTTTCAAAAAAAGTCAAAAAAGGCCACTGTCCACGC
102646514 CACACGGG
196 CACACGGG
102646522 CGTTTGGTCA
Statistics
Matches: 186, Mismatches: 16, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
205 111 0.60
206 75 0.40
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (206 bp):
TTGGCGGTAAGTGAGTTTCGTATTGTTTCCTTTATATCAAATTTGTTAGTAAACATATTAAATCA
TTGATGGCTATTCTATTTTTAGGCTTTTGGAAGGCTTAGGATTACGTTAACAACGAAAATGAACC
AGGTATATACCCAAAACATAAAAATCAAGCTTTCAAAAAAAGTCAAAAAAGGCCACTGTCCACGC
CACACGGGTGA
Found at i:102646801 original size:31 final size:31
Alignment explanation
Indices: 102646766--102646849 Score: 150
Period size: 31 Copynumber: 2.7 Consensus size: 31
102646756 GGGCATGTGG
*
102646766 ACCACATAGGCGTGTGGGCCCACACGGGCAC
1 ACCACATGGGCGTGTGGGCCCACACGGGCAC
102646797 ACCACATGGGCGTGTGGGCCCACACGGGCAC
1 ACCACATGGGCGTGTGGGCCCACACGGGCAC
*
102646828 GCCACATGGGCGTGTGGGCCCA
1 ACCACATGGGCGTGTGGGCCCA
102646850 TTTAGCTAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 51 1.00
ACGTcount: A:0.19, C:0.35, G:0.36, T:0.11
Consensus pattern (31 bp):
ACCACATGGGCGTGTGGGCCCACACGGGCAC
Found at i:102648474 original size:22 final size:22
Alignment explanation
Indices: 102648449--102648493 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
102648439 TCTCTGAGTG
*
102648449 TTCGGCTGGTGATGACGCATTA
1 TTCGGCTGATGATGACGCATTA
102648471 TTCGGCTGATGATGACGCATTA
1 TTCGGCTGATGATGACGCATTA
102648493 T
1 T
102648494 CCCAGGCTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.20, C:0.18, G:0.29, T:0.33
Consensus pattern (22 bp):
TTCGGCTGATGATGACGCATTA
Found at i:102652954 original size:41 final size:41
Alignment explanation
Indices: 102652901--102653145 Score: 321
Period size: 41 Copynumber: 6.0 Consensus size: 41
102652891 TTGTAAAACA
* * * * *
102652901 CAGAGCAATAGCGGCGTTTTTTGTTAAAACGCCGTTAAA-AA
1 CAGAGCATTAGCGGCG-CTTTTGGTAAAACGCCGCTAAAGAC
102652942 CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGAC
1 CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGAC
* * *
102652983 CAGAGCATTAGCAGCGCTTTTGGTGAAATGCCGCTAAAGAC
1 CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGAC
* * *
102653024 CAGATCATTAGCGGTGCTTTTGGTGAAACGCCGCTAAAGAC
1 CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGAC
* * * *
102653065 CAGAGCATTAGTGGCGCTTTTAGTGAAACGCCGCTCAAGAC
1 CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGAC
* *
102653106 CAAAGCATTAGCGGCGCTTTTGGTAAAACACCGCTAAAGA
1 CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGA
102653146 TACCAACTAG
Statistics
Matches: 180, Mismatches: 23, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
40 19 0.11
41 161 0.89
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.22
Consensus pattern (41 bp):
CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGAC
Found at i:102653320 original size:7 final size:7
Alignment explanation
Indices: 102653287--102653350 Score: 56
Period size: 7 Copynumber: 9.0 Consensus size: 7
102653277 AGGGGTTCAA
*
102653287 GGTTCAG
1 GGTTTAG
*
102653294 GGTTCAG
1 GGTTTAG
*
102653301 GGTTTAT
1 GGTTTAG
*
102653308 GTTTTAG
1 GGTTTAG
*
102653315 GGTTTAA
1 GGTTTAG
*
102653322 TGTTTAG
1 GGTTTAG
*
102653329 GGATTAG
1 GGTTTAG
102653336 GAGTTTAG
1 G-GTTTAG
102653344 GGTTTAG
1 GGTTTAG
102653351 ATTAGTTAGT
Statistics
Matches: 45, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
7 39 0.87
8 6 0.13
ACGTcount: A:0.19, C:0.03, G:0.36, T:0.42
Consensus pattern (7 bp):
GGTTTAG
Found at i:102653985 original size:16 final size:16
Alignment explanation
Indices: 102653964--102654007 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
102653954 AAAAATCTTC
102653964 ATAAAAAATTTAAAAA
1 ATAAAAAATTTAAAAA
102653980 ATAAAAAA--TAAAAA
1 ATAAAAAATTTAAAAA
*
102653994 ACTTAAAAATTTAA
1 A-TAAAAAATTTAA
102654008 TATTAAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 7 0.29
15 6 0.25
16 8 0.33
17 3 0.12
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (16 bp):
ATAAAAAATTTAAAAA
Found at i:102654017 original size:13 final size:13
Alignment explanation
Indices: 102653999--102654024 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
102653989 AAAAAACTTA
102653999 AAAATTTAATATT
1 AAAATTTAATATT
102654012 AAAATTTAATATT
1 AAAATTTAATATT
102654025 TTAGTTCATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AAAATTTAATATT
Found at i:102657780 original size:27 final size:28
Alignment explanation
Indices: 102657745--102657798 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
102657735 TATTTTGATA
102657745 ATGAATTTTA-AACT-TTTTATATTTTTC
1 ATGAATTTTATAA-TATTTTATATTTTTC
* *
102657772 ATGACTTTTATAATATTTTATTTTTTT
1 ATGAATTTTATAATATTTTATATTTTT
102657799 AAATTTTATG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.28, C:0.06, G:0.04, T:0.63
Consensus pattern (28 bp):
ATGAATTTTATAATATTTTATATTTTTC
Found at i:102657876 original size:43 final size:43
Alignment explanation
Indices: 102657811--102657957 Score: 204
Period size: 43 Copynumber: 3.4 Consensus size: 43
102657801 ATTTTATGAC
**** * * *
102657811 CTTTAGCGGCGTTTGCGGGAAAAGCGACGCGAAAAATCTTGGT
1 CTTTAGCGGCGTTTTTTAGAAAAGCGCCGCGAAAAGTCCTGGT
*
102657854 CTTTAGCGGCGTTTTTTAGAAAAGCGCCGCTAAAAGTCCTGGT
1 CTTTAGCGGCGTTTTTTAGAAAAGCGCCGCGAAAAGTCCTGGT
102657897 CTTTAGCGGCGTTTTTTTAGAAAAGCGCCGCGAAAAGTCCTGGT
1 CTTTAGCGGCG-TTTTTTAGAAAAGCGCCGCGAAAAGTCCTGGT
*
102657941 CTTTAGCGGCATTTTTT
1 CTTTAGCGGCGTTTTTT
102657958 TTCGGAAAAA
Statistics
Matches: 93, Mismatches: 10, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
43 52 0.56
44 41 0.44
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (43 bp):
CTTTAGCGGCGTTTTTTAGAAAAGCGCCGCGAAAAGTCCTGGT
Found at i:102657933 original size:44 final size:44
Alignment explanation
Indices: 102657829--102657958 Score: 208
Period size: 44 Copynumber: 3.0 Consensus size: 44
102657819 GCGTTTGCGG
* * *
102657829 GAAAAGCGACGCGAAAAATCTTGGTCTTTAGCGGCG-TTTTTTA
1 GAAAAGCGCCGCGAAAAGTCCTGGTCTTTAGCGGCGTTTTTTTA
*
102657872 GAAAAGCGCCGCTAAAAGTCCTGGTCTTTAGCGGCGTTTTTTTA
1 GAAAAGCGCCGCGAAAAGTCCTGGTCTTTAGCGGCGTTTTTTTA
*
102657916 GAAAAGCGCCGCGAAAAGTCCTGGTCTTTAGCGGCATTTTTTT
1 GAAAAGCGCCGCGAAAAGTCCTGGTCTTTAGCGGCGTTTTTTT
102657959 TCGGAAAAAC
Statistics
Matches: 80, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
43 32 0.40
44 48 0.60
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (44 bp):
GAAAAGCGCCGCGAAAAGTCCTGGTCTTTAGCGGCGTTTTTTTA
Found at i:102660666 original size:12 final size:12
Alignment explanation
Indices: 102660630--102660692 Score: 63
Period size: 12 Copynumber: 5.2 Consensus size: 12
102660620 CATTTTAAAG
*
102660630 TATTATCATTAT
1 TATTATAATTAT
**
102660642 GCTTATAATTAT
1 TATTATAATTAT
*
102660654 TTTTATAATTAT
1 TATTATAATTAT
**
102660666 TATTATAAAAAT
1 TATTATAATTAT
*
102660678 TATTATAAATAT
1 TATTATAATTAT
102660690 TAT
1 TAT
102660693 ATTTAAAAAA
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 42 1.00
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.54
Consensus pattern (12 bp):
TATTATAATTAT
Found at i:102660804 original size:3 final size:3
Alignment explanation
Indices: 102660796--102660827 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
102660786 ATCTAGTTTT
102660796 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
102660828 CAATTAAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:102661388 original size:32 final size:32
Alignment explanation
Indices: 102661347--102661410 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
102661337 ATCTGTAAAA
102661347 GATGCATGGCCATAACCCTTAAATTCATTATC
1 GATGCATGGCCATAACCCTTAAATTCATTATC
102661379 GATGCATGGCCATAACCCTTAAATTCATTATC
1 GATGCATGGCCATAACCCTTAAATTCATTATC
102661411 TTATAACCCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.31
Consensus pattern (32 bp):
GATGCATGGCCATAACCCTTAAATTCATTATC
Found at i:102661860 original size:18 final size:19
Alignment explanation
Indices: 102661837--102661873 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
102661827 TTTAAAAAAG
*
102661837 TATAAA-ATTTATAATTTT
1 TATAAATATTTAAAATTTT
102661855 TATAAATATTTAAAATTTT
1 TATAAATATTTAAAATTTT
102661874 AAAAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
TATAAATATTTAAAATTTT
Found at i:102669641 original size:24 final size:23
Alignment explanation
Indices: 102669577--102669641 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 23
102669567 ATATAAAAAT
*
102669577 AATTATA-TTAAAAATATTATTA
1 AATTATATTTAATAATATTATTA
*
102669599 AATTATATATT-AT--TTTTATTA
1 AATTATAT-TTAATAATATTATTA
102669620 AATTATATTTAATAATAATTAT
1 AATTATATTTAATAAT-ATTAT
102669642 ATTAAAATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
20 2 0.06
21 17 0.50
22 7 0.21
23 2 0.06
24 6 0.18
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
AATTATATTTAATAATATTATTA
Found at i:102669644 original size:26 final size:27
Alignment explanation
Indices: 102669615--102669676 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
102669605 ATATTATTTT
* *
102669615 TATTAAATTAT-ATTTAAT-AATAATTA
1 TATTAAAATATGA-TTAATAAATAATCA
*
102669641 TATTAAAATATGATTAATAAATAATCC
1 TATTAAAATATGATTAATAAATAATCA
102669668 TATTAAAAT
1 TATTAAAAT
102669677 GTAATAACAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 15 0.48
27 16 0.52
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.44
Consensus pattern (27 bp):
TATTAAAATATGATTAATAAATAATCA
Found at i:102675050 original size:21 final size:20
Alignment explanation
Indices: 102674996--102675050 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 20
102674986 CCCAAAAAAT
* *
102674996 ATTTAATGTGTATACTTGAA
1 ATTTAATTTGTATACATGAA
*
102675016 ACTCTAA-TTGTATACATGAA
1 A-TTTAATTTGTATACATGAA
102675036 ATTTAATTTGGTATA
1 ATTTAATTT-GTATA
102675051 ATTACACACA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
19 4 0.14
20 15 0.54
21 9 0.32
ACGTcount: A:0.36, C:0.07, G:0.13, T:0.44
Consensus pattern (20 bp):
ATTTAATTTGTATACATGAA
Found at i:102692372 original size:26 final size:26
Alignment explanation
Indices: 102692343--102692450 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
102692333 TGGTACAAAT
102692343 TGATAATGTG-TTAGGTAAATGTTCCA
1 TGATAATG-GATTAGGTAAATGTTCCA
*
102692369 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
102692395 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
102692421 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
102692447 TGAT
1 TGAT
102692451 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
25 1 0.01
26 76 0.99
ACGTcount: A:0.32, C:0.07, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:102693642 original size:8 final size:8
Alignment explanation
Indices: 102693629--102693658 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
102693619 AAACTGGCAC
102693629 AAGCCGAA
1 AAGCCGAA
102693637 AAGCCGAA
1 AAGCCGAA
*
102693645 ATGCCGAA
1 AAGCCGAA
102693653 AAGCCG
1 AAGCCG
102693659 GTATTTTGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.43, C:0.27, G:0.27, T:0.03
Consensus pattern (8 bp):
AAGCCGAA
Found at i:102694131 original size:54 final size:54
Alignment explanation
Indices: 102694048--102694206 Score: 225
Period size: 54 Copynumber: 3.0 Consensus size: 54
102694038 AGGAAGCGTC
102694048 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGTCACATATATCTG-T
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGTCACATATATCTGTT
* *
102694101 CTTGGTGGCTGTGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 C-TGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGTCACATATATCTGTT
* * * *
102694156 CTGGTGGCTCTGCCACAA-TATCGGTATCTGGTGACTTTGTCACA-ATATCTG
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGGCTCTGTCACATATATCTG
102694207 GCAGCCTCAC
Statistics
Matches: 96, Mismatches: 7, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
53 13 0.14
54 81 0.84
55 2 0.02
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.35
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGTCACATATATCTGTT
Found at i:102694184 original size:32 final size:27
Alignment explanation
Indices: 102694048--102694206 Score: 175
Period size: 27 Copynumber: 5.9 Consensus size: 27
102694038 AGGAAGCGTC
*
102694048 CTGGTGGCTATGCCACA-ATTATCTGAT
1 CTGGTGGCTCTGCCACATA-TATCTGAT
*
102694075 CTGGTGGCTCTGTCACATATATCTG-T
1 CTGGTGGCTCTGCCACATATATCTGAT
*
102694101 CTTGGTGGCTGTGCCACA-ATTATCTGAT
1 C-TGGTGGCTCTGCCACATA-TATCTGAT
*
102694129 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGAT
*
102694156 CTGGTGGCTCTGCCACA-ATATCGGTAT
1 CTGGTGGCTCTGCCACATATATCTG-AT
* * *
102694183 CTGGTGACTTTGTCACA-ATATCTG
1 CTGGTGGCTCTGCCACATATATCTG
102694207 GCAGCCTCAC
Statistics
Matches: 114, Mismatches: 12, Indels: 12
0.83 0.09 0.09
Matches are distributed among these distances:
26 9 0.08
27 101 0.89
28 4 0.04
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATATATCTGAT
Found at i:102694188 original size:81 final size:80
Alignment explanation
Indices: 102694048--102694206 Score: 205
Period size: 81 Copynumber: 2.0 Consensus size: 80
102694038 AGGAAGCGTC
* * * *
102694048 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGTCACATATATCTGTCTTGGTGGCTGT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCGGTATTGGTGACTGT
102694113 GCCACAATTATCTGAT
66 GCCACAA-TATCTGAT
* *
102694129 CTGGTGGCTCTGCCAC-ATATATCTGTTCTGGTGGCTCTGCCACA-ATATCGGTATCTGGTGACT
1 CTGGTGGCTATGCCACAAT-TATCTGATCTGGTGGCTCTGCCACATATATCGGTAT-TGGTGACT
* *
102694192 TTGTCACAATATCTG
64 GTGCCACAATATCTG
102694207 GCAGCCTCAC
Statistics
Matches: 68, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
80 16 0.24
81 52 0.76
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.35
Consensus pattern (80 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCGGTATTGGTGACTGT
GCCACAATATCTGAT
Found at i:102695899 original size:24 final size:25
Alignment explanation
Indices: 102695872--102695926 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 25
102695862 TTAGCTAAAA
*
102695872 TGTGTTGTAT-ATTTGATGCATATT
1 TGTGTTGTATAATTTCATGCATATT
* * *
102695896 TGTGGTATATAATTTCATGCATTTT
1 TGTGTTGTATAATTTCATGCATATT
102695921 TG-GTTG
1 TGTGTTG
102695927 AAATTAGAGT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
24 10 0.42
25 14 0.58
ACGTcount: A:0.20, C:0.05, G:0.22, T:0.53
Consensus pattern (25 bp):
TGTGTTGTATAATTTCATGCATATT
Found at i:102696079 original size:36 final size:36
Alignment explanation
Indices: 102696032--102696101 Score: 115
Period size: 36 Copynumber: 1.9 Consensus size: 36
102696022 TCATTTATGA
*
102696032 CATTTTTTAATTCACTAAAGTGTATAAAA-TAGTTAC
1 CATTTTTTAATTCACTAAAATGTA-AAAAGTAGTTAC
102696068 CATTTTTTAATTCACTAAAATGTAAAAAGTAGTT
1 CATTTTTTAATTCACTAAAATGTAAAAAGTAGTT
102696102 GCCAATGAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
35 4 0.12
36 28 0.88
ACGTcount: A:0.40, C:0.10, G:0.09, T:0.41
Consensus pattern (36 bp):
CATTTTTTAATTCACTAAAATGTAAAAAGTAGTTAC
Found at i:102697318 original size:25 final size:25
Alignment explanation
Indices: 102697290--102697345 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
102697280 CACAACAGAA
*
102697290 CAGAACAAGACAAAACCAAA-CAAAG
1 CAGAACAAAAC-AAACCAAACCAAAG
* *
102697315 CAGAACAAAACAAATCAAACCAGAG
1 CAGAACAAAACAAACCAAACCAAAG
102697340 CAGAAC
1 CAGAAC
102697346 CGAACAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 7 0.26
25 20 0.74
ACGTcount: A:0.61, C:0.25, G:0.12, T:0.02
Consensus pattern (25 bp):
CAGAACAAAACAAACCAAACCAAAG
Found at i:102697322 original size:20 final size:20
Alignment explanation
Indices: 102697299--102697353 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
102697289 ACAGAACAAG
*
102697299 ACAAAACCAAACAAAGCAGA
1 ACAAAACCAAACAAACCAGA
102697319 ACAAAA-CAAATCAAACCAGA
1 ACAAAACCAAA-CAAACCAGA
* * *
102697339 GCAGAACCGAACAAA
1 ACAAAACCAAACAAA
102697354 ATAGTACAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 4 0.14
20 22 0.76
21 3 0.10
ACGTcount: A:0.62, C:0.25, G:0.11, T:0.02
Consensus pattern (20 bp):
ACAAAACCAAACAAACCAGA
Found at i:102707677 original size:13 final size:13
Alignment explanation
Indices: 102707659--102707684 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
102707649 CGCAACAGGA
102707659 ACACGCCCGTGTG
1 ACACGCCCGTGTG
102707672 ACACGCCCGTGTG
1 ACACGCCCGTGTG
102707685 CGATATCTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.38, G:0.31, T:0.15
Consensus pattern (13 bp):
ACACGCCCGTGTG
Found at i:102711096 original size:13 final size:14
Alignment explanation
Indices: 102711070--102711098 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
102711060 ACTAACGATG
102711070 AATTAAACCATTAT
1 AATTAAACCATTAT
102711084 AATTAAA-CATTAT
1 AATTAAACCATTAT
102711097 AA
1 AA
102711099 ATATTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:102716685 original size:29 final size:30
Alignment explanation
Indices: 102716652--102716720 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 30
102716642 AAACCCTAAC
* *
102716652 CCCTAAACTCCTAAATCTTAAA-C-CACAAA
1 CCCTAAACTCATAAATCCTAAATCTCA-AAA
*
102716681 TCCTAAACT-ATAAATCCTAAATCTCAAAA
1 CCCTAAACTCATAAATCCTAAATCTCAAAA
102716710 CCCTAAACTCA
1 CCCTAAACTCA
102716721 AACCCTTATT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
28 10 0.30
29 20 0.61
30 3 0.09
ACGTcount: A:0.45, C:0.32, G:0.00, T:0.23
Consensus pattern (30 bp):
CCCTAAACTCATAAATCCTAAATCTCAAAA
Found at i:102716702 original size:21 final size:20
Alignment explanation
Indices: 102716653--102716703 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 20
102716643 AACCCTAACC
102716653 CCTAAACTCCTAAATCTTAAA
1 CCTAAA-TCCTAAATCTTAAA
*
102716674 CCACAAATCCTAAA-CTATAAA
1 CC-TAAATCCTAAATCT-TAAA
102716695 TCCTAAATC
1 -CCTAAATC
102716704 TCAAAACCCT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
20 2 0.08
21 18 0.72
22 5 0.20
ACGTcount: A:0.45, C:0.29, G:0.00, T:0.25
Consensus pattern (20 bp):
CCTAAATCCTAAATCTTAAA
Found at i:102717912 original size:115 final size:114
Alignment explanation
Indices: 102717686--102717942 Score: 272
Period size: 115 Copynumber: 2.3 Consensus size: 114
102717676 ACAGTTGAGC
* * *
102717686 AATTTTTTTTGCGGCGTTTTT-GAAAAAGCGCCGCTAATGCTCAATCTATAGTAGCAATTTTCAA
1 AATTTTTTTTGCAGCATTTTTCG-AAAAGCGCCGCTAATGCTCAATCTATAGCAGCAATTTTCAA
* * * * * * *
102717750 AACGTCGCTAAAGCCATTAAAGCTCGACATAAAACAAAGGACGTTGTGTTT
65 AAAGACCCTAAAGCCACTAAAGCTCAACATAAAACAAA-GACATTGTGCTT
* * **
102717801 AATTTTTTTTGCAGCATTTTTCGAAAAGCGCCGCTAATGCTCAATTTATAGCGGCGTTTTTCAAA
1 AATTTTTTTTGCAGCATTTTTCGAAAAGCGCCGCTAATGCTCAATCTATAGCAGCAATTTTCAAA
* *
102717866 AAGCACCCTAATA-CCACTAAAGCTCAACATAAAACGACA-TCATTGTGCTT
66 AAG-ACCCTAA-AGCCACTAAAGCTCAACATAAAAC-AAAGACATTGTGCTT
* *
102717916 AATTTTTTTCG-A-CATTTTTCAAAAAGC
1 AATTTTTTTTGCAGCATTTTTCGAAAAGC
102717943 ACGTCGACCT
Statistics
Matches: 120, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
113 14 0.12
114 1 0.01
115 76 0.63
116 26 0.22
117 3 0.03
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (114 bp):
AATTTTTTTTGCAGCATTTTTCGAAAAGCGCCGCTAATGCTCAATCTATAGCAGCAATTTTCAAA
AAGACCCTAAAGCCACTAAAGCTCAACATAAAACAAAGACATTGTGCTT
Found at i:102719266 original size:26 final size:26
Alignment explanation
Indices: 102719237--102719344 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
102719227 TGATACAAAT
102719237 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
102719263 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
102719289 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
102719315 TGATAATGGGTTAGATAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
102719341 TGAT
1 TGAT
102719345 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:102726703 original size:26 final size:26
Alignment explanation
Indices: 102726674--102726780 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
102726664 TGGTAAAAAT
102726674 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
102726700 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
102726726 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
102726752 TGATAATGGTTTA-GAAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
102726777 TGAT
1 TGAT
102726781 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
25 15 0.20
26 60 0.80
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:102731852 original size:13 final size:13
Alignment explanation
Indices: 102731834--102731865 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
102731824 TTATTATTTG
102731834 ACCTATGAATTGA
1 ACCTATGAATTGA
102731847 ACCTATGAATTGA
1 ACCTATGAATTGA
*
102731860 GCCTAT
1 ACCTAT
102731866 AAATAGGCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (13 bp):
ACCTATGAATTGA
Found at i:102733082 original size:60 final size:59
Alignment explanation
Indices: 102732955--102733098 Score: 166
Period size: 60 Copynumber: 2.4 Consensus size: 59
102732945 TTTAGTGTTA
* *
102732955 ACTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGTAACAGAGTAT
1 ACTGGGCC-TAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAGT-ACAGAGTAT
* *
102733016 ACTGGGCCTAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTACAAGT-C-GAGATAT
1 ACTGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCC-ATTAC-AGTACAGAG-TAT
* * *
102733076 ATTGGGCCTTGCCCATATTAATA
1 ACTGGGCCTAGCCCATATCAATA
102733099 CAGTTGGACC
Statistics
Matches: 72, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
59 3 0.04
60 54 0.75
61 12 0.17
62 3 0.04
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (59 bp):
ACTGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAGTACAGAGTAT
Found at i:102736666 original size:40 final size:40
Alignment explanation
Indices: 102736603--102736686 Score: 96
Period size: 40 Copynumber: 2.1 Consensus size: 40
102736593 AAAATAGAAT
* * * * *
102736603 AGATCGAGTATTAGAGGCGTTTTTATGAAAGCGCCACTAA
1 AGATCGAGCATTAGAGACATTTTTAAGAAAGCACCACTAA
* * *
102736643 AGATCGAGCATTAGCGACATTTTTAAGGAAGCACCGCTAA
1 AGATCGAGCATTAGAGACATTTTTAAGAAAGCACCACTAA
102736683 AGAT
1 AGAT
102736687 TGACCTATAG
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.25
Consensus pattern (40 bp):
AGATCGAGCATTAGAGACATTTTTAAGAAAGCACCACTAA
Found at i:102737606 original size:21 final size:21
Alignment explanation
Indices: 102737582--102737634 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
102737572 TCTATAATCG
102737582 TAAATCATAAAT-TATAAACCT
1 TAAATCATAAATAT-TAAACCT
* *
102737603 TAAACCTTAAATATTAAACCT
1 TAAATCATAAATATTAAACCT
* *
102737624 TGAATCCTAAA
1 TAAATCATAAA
102737635 CCATAAAACC
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 25 0.96
22 1 0.04
ACGTcount: A:0.49, C:0.17, G:0.02, T:0.32
Consensus pattern (21 bp):
TAAATCATAAATATTAAACCT
Found at i:102737777 original size:21 final size:21
Alignment explanation
Indices: 102737742--102737799 Score: 80
Period size: 21 Copynumber: 2.7 Consensus size: 21
102737732 ATTATAAAAC
*
102737742 ATCTTAAAACTATAAACCCTAA
1 ATCTT-AAACCATAAACCCTAA
102737764 ATCTTAAACCATAAACCCTAA
1 ATCTTAAACCATAAACCCTAA
**
102737785 ATCCAAAACCATAAA
1 ATCTTAAACCATAAA
102737800 ACCTTAAACT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
21 28 0.85
22 5 0.15
ACGTcount: A:0.52, C:0.26, G:0.00, T:0.22
Consensus pattern (21 bp):
ATCTTAAACCATAAACCCTAA
Found at i:102738541 original size:188 final size:187
Alignment explanation
Indices: 102738270--102738628 Score: 483
Period size: 188 Copynumber: 1.9 Consensus size: 187
102738260 TTGAAGCTTT
* *
102738270 GTTATTAGTGGCGTTTCTAAAAAACGCCACAAAACATCTATTAAGAGAATGTAAAACGGCATCGT
1 GTTATTAGTGGCGCTTCTAAAAAACGCCACAAAACATCTA-TAAGAGAATCTAAAACGGCATCGT
* * * ** *
102738335 TTACATCCTTCTTATTAGTGGCGCTTCTATAAACGCCGCAAAAGGTGTGATTTACCGGCGTTTTC
65 TTACAGCCTTCTTATTAGTGGCGCTTCTATAAACGCCACAAAAGATGTGAAATACAGGCGTTTTC
* * *
102738400 ACTAGAAAACGCCACAAACATCTATTAGTAGATTGCA-AAACGACGTTGTTATTACCAA
130 ACTAG-AAACACCACAAAAATCTATTAATAGATTGCAGAAACGACGTTGTTATTACCAA
* *
102738458 GTTATTAGTGGCGCTTCTTGGAAAAACGCCACAAAACATCTA-AAGAG-ATCTCAAAACGTCATC
1 GTTATTAGTGGCGCTTC-T-AAAAAACGCCACAAAACATCTATAAGAGAATCT-AAAACGGCATC
* * *
102738521 ATTTTATAGCCTT-TTATTAGTGGCGCTTTTATAAACGCCACAAAAGATGTGAAATACAGGCGTT
63 -GTTTACAGCCTTCTTATTAGTGGCGCTTCTATAAACGCCACAAAAGATGTGAAATACAGGCGTT
*
102738585 TTCGCTAGAAACACCACAAAAATCTATTAATAGATTGCAGAAAC
127 TTCACTAGAAACACCACAAAAATCTATTAATAGATTGCAGAAAC
102738629 TGCGTCATTT
Statistics
Matches: 149, Mismatches: 17, Indels: 10
0.85 0.10 0.06
Matches are distributed among these distances:
187 31 0.21
188 87 0.58
189 10 0.07
190 21 0.14
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (187 bp):
GTTATTAGTGGCGCTTCTAAAAAACGCCACAAAACATCTATAAGAGAATCTAAAACGGCATCGTT
TACAGCCTTCTTATTAGTGGCGCTTCTATAAACGCCACAAAAGATGTGAAATACAGGCGTTTTCA
CTAGAAACACCACAAAAATCTATTAATAGATTGCAGAAACGACGTTGTTATTACCAA
Found at i:102741412 original size:2 final size:2
Alignment explanation
Indices: 102741405--102741438 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
102741395 CTGAAAGACA
* *
102741405 AT AT AT AT AA AT AT AT AT TT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
102741439 TACCTTTCGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:102742333 original size:29 final size:29
Alignment explanation
Indices: 102742299--102742365 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
102742289 TAATTTGGAT
*
102742299 TAATTTATT-TAAATATTATTAAATTAATA
1 TAATTT-TTATAAATATTATTAAATTAAAA
*
102742328 TAATTTTTATAAATATTATTTAATTAAAA
1 TAATTTTTATAAATATTATTAAATTAAAA
102742357 TAAATTTTT
1 T-AATTTTT
102742366 TTCCATGTGA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
28 2 0.06
29 25 0.74
30 7 0.21
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (29 bp):
TAATTTTTATAAATATTATTAAATTAAAA
Found at i:102742651 original size:9 final size:9
Alignment explanation
Indices: 102742634--102742971 Score: 401
Period size: 9 Copynumber: 38.7 Consensus size: 9
102742624 TATATACTTG
102742634 AACTTACAT
1 AACTTACAT
*
102742643 AACTCACAT
1 AACTTACAT
102742652 AACTTACAT
1 AACTTACAT
102742661 AACTTACAT
1 AACTTACAT
102742670 AACTTACAT
1 AACTTACAT
*
102742679 AACTCACAT
1 AACTTACAT
*
102742688 AACTCACAT
1 AACTTACAT
*
102742697 AACTCACAT
1 AACTTACAT
102742706 AACTTACAT
1 AACTTACAT
*
102742715 AACTTATAT
1 AACTTACAT
102742724 AACTTACAT
1 AACTTACAT
102742733 AACTTACAT
1 AACTTACAT
102742742 AACTTACAT
1 AACTTACAT
*
102742751 AACTCACAT
1 AACTTACAT
102742760 AAC-T---T
1 AACTTACAT
102742765 -ACTTACAT
1 AACTTACAT
*
102742773 AACTCACAT
1 AACTTACAT
102742782 AACTTACAT
1 AACTTACAT
102742791 AACTTACAT
1 AACTTACAT
102742800 AACTTACAT
1 AACTTACAT
* *
102742809 AACTTATAC
1 AACTTACAT
102742818 AACTTACAT
1 AACTTACAT
102742827 AACTTACAT
1 AACTTACAT
*
102742836 AACTCACAT
1 AACTTACAT
* *
102742845 AACTCACAC
1 AACTTACAT
102742854 AACTTACAT
1 AACTTACAT
102742863 AACTT--AT
1 AACTTACAT
*
102742870 -ATTTACAT
1 AACTTACAT
102742878 AACTTACAT
1 AACTTACAT
*
102742887 AACTCACAT
1 AACTTACAT
*
102742896 AACTTACAG
1 AACTTACAT
102742905 AACTTACAT
1 AACTTACAT
*
102742914 AATTTACAT
1 AACTTACAT
102742923 AACTTACAT
1 AACTTACAT
*
102742932 TA--TACAT
1 AACTTACAT
* *
102742939 AA-ATATAT
1 AACTTACAT
* *
102742947 ATCATATCAT
1 AACTTA-CAT
102742957 AACTTACAT
1 AACTTACAT
102742966 AACTTA
1 AACTTA
102742972 ATTAGAGTTA
Statistics
Matches: 285, Mismatches: 33, Indels: 22
0.84 0.10 0.06
Matches are distributed among these distances:
4 2 0.01
5 2 0.01
6 3 0.01
7 8 0.03
8 8 0.03
9 256 0.90
10 6 0.02
ACGTcount: A:0.44, C:0.23, G:0.00, T:0.32
Consensus pattern (9 bp):
AACTTACAT
Found at i:102748442 original size:21 final size:21
Alignment explanation
Indices: 102748417--102748478 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 21
102748407 TTAGAGCGGA
* *
102748417 GGCAGCAGAAAAGGAGGCAGC
1 GGCAGCAGCAAGGGAGGCAGC
* *
102748438 GGCAGCAGCGAGGGAGGCAAC
1 GGCAGCAGCAAGGGAGGCAGC
*
102748459 GACAGCAGCAAGGGAGGCAG
1 GGCAGCAGCAAGGGAGGCAG
102748479 AGCAGAGCAG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.34, C:0.21, G:0.45, T:0.00
Consensus pattern (21 bp):
GGCAGCAGCAAGGGAGGCAGC
Found at i:102751108 original size:18 final size:18
Alignment explanation
Indices: 102751085--102751124 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
102751075 TTTTGCATTG
*
102751085 TTTTAAAAAATATTTATT
1 TTTTAAAAAATATATATT
*
102751103 TTTTAAAAAATCTATATT
1 TTTTAAAAAATATATATT
102751121 TTTT
1 TTTT
102751125 TATTTTTTTA
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:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTTAAAAAATATATATT
Found at i:102751264 original size:17 final size:18
Alignment explanation
Indices: 102751230--102751266 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
102751220 TTTTTAGAAT
102751230 TTAAAATTTCAAGAAAAA
1 TTAAAATTTCAAGAAAAA
*
102751248 TTAAAATTT-ATGAAAAA
1 TTAAAATTTCAAGAAAAA
102751265 TT
1 TT
102751267 TTCTAGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (18 bp):
TTAAAATTTCAAGAAAAA
Found at i:102751961 original size:12 final size:12
Alignment explanation
Indices: 102751944--102751978 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
102751934 TATAGAGATA
102751944 TTAAAAAAAATT
1 TTAAAAAAAATT
*
102751956 TTAAAAAAATTT
1 TTAAAAAAAATT
*
102751968 TTTAAAAAAAT
1 TTAAAAAAAAT
102751979 AAGTGACAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
TTAAAAAAAATT
Found at i:102751978 original size:13 final size:13
Alignment explanation
Indices: 102751944--102751979 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
102751934 TATAGAGATA
102751944 TTAAAAAAA-ATT
1 TTAAAAAAATATT
*
102751956 TTAAAAAAATTTT
1 TTAAAAAAATATT
102751969 TTAAAAAAATA
1 TTAAAAAAATA
102751980 AGTGACAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 9 0.43
13 12 0.57
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
TTAAAAAAATATT
Found at i:102752527 original size:6 final size:6
Alignment explanation
Indices: 102752518--102752544 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
102752508 TACATCCTAA
102752518 TCCCAT TCCCAT TCCCAT TCCCAT TCC
1 TCCCAT TCCCAT TCCCAT TCCCAT TCC
102752545 TCAATTCTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.52, G:0.00, T:0.33
Consensus pattern (6 bp):
TCCCAT
Found at i:102761530 original size:12 final size:12
Alignment explanation
Indices: 102761513--102761545 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
102761503 CGGCCCTTTC
102761513 ATATTAATTTTT
1 ATATTAATTTTT
102761525 ATATT-ATTTTT
1 ATATTAATTTTT
102761536 ATA-TAATTTT
1 ATATTAATTTT
102761546 AAAAAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:102761570 original size:18 final size:18
Alignment explanation
Indices: 102761547--102761586 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
102761537 TATAATTTTA
*
102761547 AAAAATA-TATAATACATC
1 AAAAATACTA-AAAACATC
102761565 AAAAATACTAAAAACATC
1 AAAAATACTAAAAACATC
102761583 AAAA
1 AAAA
102761587 TAAATATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.20
Consensus pattern (18 bp):
AAAAATACTAAAAACATC
Found at i:102761763 original size:22 final size:22
Alignment explanation
Indices: 102761731--102761773 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
102761721 TATCCAAATA
102761731 ATAATAATAAAATAGTAGCAAC
1 ATAATAATAAAATAGTAGCAAC
*
102761753 ATAATAATAAAATGGTAGCAA
1 ATAATAATAAAATAGTAGCAA
102761774 AATAGGGAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.58, C:0.07, G:0.12, T:0.23
Consensus pattern (22 bp):
ATAATAATAAAATAGTAGCAAC
Found at i:102771055 original size:24 final size:24
Alignment explanation
Indices: 102771025--102771077 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
102771015 CTATGTTATA
102771025 ATATTTGTAACTAAAATTAATATT
1 ATATTTGTAACTAAAATTAATATT
*
102771049 ATATTTGTATCTAAAATTAATATT
1 ATATTTGTAACTAAAATTAATATT
102771073 ATATT
1 ATATT
102771078 ATAAAATACT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (24 bp):
ATATTTGTAACTAAAATTAATATT
Found at i:102771566 original size:9 final size:9
Alignment explanation
Indices: 102771548--102771696 Score: 144
Period size: 9 Copynumber: 16.6 Consensus size: 9
102771538 GTTTAAATGT
102771548 CATAACTTA
1 CATAACTTA
*
102771557 CATAATTTA
1 CATAACTTA
102771566 CATAACTTA
1 CATAACTTA
102771575 CATAA--TA
1 CATAACTTA
*
102771582 CATAA-ATA
1 CATAACTTA
* * *
102771590 TATATCATA
1 CATAACTTA
102771599 TCATAACTTA
1 -CATAACTTA
*
102771609 CATAACTCA
1 CATAACTTA
*
102771618 CACAACTTA
1 CATAACTTA
102771627 CATAACTTA
1 CATAACTTA
102771636 -ATAACTTA
1 CATAACTTA
* *
102771644 TATATATCATA
1 CATA-A-CTTA
102771655 TCATAACTTA
1 -CATAACTTA
*
102771665 CATAACTCA
1 CATAACTTA
102771674 CATAACTTA
1 CATAACTTA
102771683 CATAACTTA
1 CATAACTTA
102771692 CATAA
1 CATAA
102771697 TACATAAATA
Statistics
Matches: 117, Mismatches: 16, Indels: 14
0.80 0.11 0.10
Matches are distributed among these distances:
7 7 0.06
8 13 0.11
9 80 0.68
10 10 0.09
11 4 0.03
12 3 0.03
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.34
Consensus pattern (9 bp):
CATAACTTA
Found at i:102771669 original size:56 final size:56
Alignment explanation
Indices: 102771547--102771720 Score: 232
Period size: 56 Copynumber: 3.1 Consensus size: 56
102771537 AGTTTAAATG
* *
102771547 TCATAACTTACATAATTTACATAACTTACATAA--TACATAA--ATATATATCATA
1 TCATAACTTACATAACTCACATAACTTACATAACTTACATAACTATATATATCATA
*
102771599 TCATAACTTACATAACTCACACAACTTACATAACTTA-ATAACTTATATATATCATA
1 TCATAACTTACATAACTCACATAACTTACATAACTTACATAAC-TATATATATCATA
102771655 TCATAACTTACATAACTCACATAACTTACATAACTTACATAATACATAAATATATATCATA
1 TCATAACTTACATAACTCACATAACTTACATAACTTACAT-A-AC-T--ATATATATCATA
102771716 TCATA
1 TCATA
102771721 TCATAATTTA
Statistics
Matches: 107, Mismatches: 5, Indels: 11
0.87 0.04 0.09
Matches are distributed among these distances:
52 30 0.28
53 4 0.04
54 2 0.02
56 48 0.45
57 2 0.02
58 1 0.01
59 3 0.03
61 17 0.16
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.34
Consensus pattern (56 bp):
TCATAACTTACATAACTCACATAACTTACATAACTTACATAACTATATATATCATA
Found at i:102773461 original size:12 final size:12
Alignment explanation
Indices: 102773446--102773471 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
102773436 CAAATCGAGG
102773446 GATGAATCTGAT
1 GATGAATCTGAT
102773458 GATGAATCTGAT
1 GATGAATCTGAT
102773470 GA
1 GA
102773472 AGAGGATAAT
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:0.35, C:0.08, G:0.27, T:0.31
Consensus pattern (12 bp):
GATGAATCTGAT
Found at i:102777221 original size:21 final size:21
Alignment explanation
Indices: 102777182--102777221 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
102777172 AAATTGCTCA
* *
102777182 ACTTAAAGCGAAGGGAGCATC
1 ACTTAAAGAGAAGGCAGCATC
*
102777203 ACTTAAAGAGGAGGCAGCA
1 ACTTAAAGAGAAGGCAGCA
102777222 AAGAGGGAAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.17, G:0.30, T:0.12
Consensus pattern (21 bp):
ACTTAAAGAGAAGGCAGCATC
Found at i:102777470 original size:25 final size:24
Alignment explanation
Indices: 102777434--102777517 Score: 61
Period size: 25 Copynumber: 3.5 Consensus size: 24
102777424 TTGAAGTATC
102777434 ATTTAGATTTGCTGTTATTGCTTGG
1 ATTTAGATTTGCTGTTATTG-TTGG
* * *
102777459 ATTT-GATGTTGCT-TGA-AG-TGTC
1 ATTTAGAT-TTGCTGTTATTGTTG-G
102777481 ATTTAGATTTGCTGTTATTGGTTGG
1 ATTTAGATTTGCTGTTATT-GTTGG
102777506 ATTT-GATGTTGC
1 ATTTAGAT-TTGC
102777518 AAGAAGGATT
Statistics
Matches: 45, Mismatches: 6, Indels: 16
0.67 0.09 0.24
Matches are distributed among these distances:
21 2 0.04
22 9 0.20
23 6 0.13
24 8 0.18
25 18 0.40
26 2 0.04
ACGTcount: A:0.17, C:0.07, G:0.26, T:0.50
Consensus pattern (24 bp):
ATTTAGATTTGCTGTTATTGTTGG
Found at i:102777493 original size:47 final size:47
Alignment explanation
Indices: 102777424--102777517 Score: 170
Period size: 47 Copynumber: 2.0 Consensus size: 47
102777414 CGTTGAAATT
102777424 TTGAAGTATCATTTAGATTTGCTGTTATTGCTTGGATTTGATGTTGC
1 TTGAAGTATCATTTAGATTTGCTGTTATTGCTTGGATTTGATGTTGC
* *
102777471 TTGAAGTGTCATTTAGATTTGCTGTTATTGGTTGGATTTGATGTTGC
1 TTGAAGTATCATTTAGATTTGCTGTTATTGCTTGGATTTGATGTTGC
102777518 AAGAAGGATT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.18, C:0.07, G:0.26, T:0.49
Consensus pattern (47 bp):
TTGAAGTATCATTTAGATTTGCTGTTATTGCTTGGATTTGATGTTGC
Found at i:102777657 original size:43 final size:43
Alignment explanation
Indices: 102777608--102777746 Score: 206
Period size: 43 Copynumber: 3.2 Consensus size: 43
102777598 AGAACATACA
* * *
102777608 TTTAGCGGCATTTGCAAAAAAAGCGCCGCTAAAGGCCACGTTC
1 TTTAGCGGCATTTGTACAAAAAGCGCCGCTAAAGGCCACATTC
*
102777651 TTTAGCGGCGTTTGTACAAAAAGCGCCGCTAAAGGCCACATTC
1 TTTAGCGGCATTTGTACAAAAAGCGCCGCTAAAGGCCACATTC
* **
102777694 TTTAGCGGCGTTTGTACAAAAAGCGCCGCTAAAGATCACATTC
1 TTTAGCGGCATTTGTACAAAAAGCGCCGCTAAAGGCCACATTC
*
102777737 TTTAGTGGCA
1 TTTAGCGGCA
102777747 CTTTCATGTT
Statistics
Matches: 88, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 88 1.00
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (43 bp):
TTTAGCGGCATTTGTACAAAAAGCGCCGCTAAAGGCCACATTC
Found at i:102778671 original size:3 final size:3
Alignment explanation
Indices: 102778663--102778862 Score: 63
Period size: 3 Copynumber: 65.7 Consensus size: 3
102778653 ATTAGTTTAA
* * * * * *
102778663 TAT TAT TAT TAC TAT TAT TAT TAACG TAT CAT TAT TCT TGT TAT CAT
1 TAT TAT TAT TAT TAT TAT TAT T-A-T TAT TAT TAT TAT TAT TAT TAT
* * * *
102778710 TTT TA- TATT TAT GTAT TAA TAT CAT TAT T-T TTT TA- TAT TAT TAT
1 TAT TAT TA-T TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
102778754 TAT CAC TAT TGT CT-T TAC TAT TAT TAT TAT TAAT GCAT TAT TGT TGT
1 TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT T-AT -TAT TAT TAT TAT
* * * *
102778801 TCTT TAT T-T T-T TTT CTAT TAT TAT TAC TAT TAC TAT TAGT TAT TAT
1 T-AT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT
*
102778847 TAT TAT CA- TAT TAT TA
1 TAT TAT TAT TAT TAT TA
102778863 ATCAGTTTTG
Statistics
Matches: 144, Mismatches: 37, Indels: 32
0.68 0.17 0.15
Matches are distributed among these distances:
2 12 0.08
3 112 0.78
4 19 0.13
5 1 0.01
ACGTcount: A:0.28, C:0.08, G:0.04, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:102778780 original size:27 final size:25
Alignment explanation
Indices: 102778723--102778783 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
102778713 TATATTTATG
* * *
102778723 TATTAATATCATTATTTTTTTATAT
1 TATTATTATCACTATTTCTTTATAT
102778748 TATTATTATCACTATTGTCTTTACTAT
1 TATTATTATCACTATT-TCTTTA-TAT
102778775 TATTATTAT
1 TATTATTAT
102778784 TAATGCATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
25 14 0.45
26 5 0.16
27 12 0.39
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.61
Consensus pattern (25 bp):
TATTATTATCACTATTTCTTTATAT
Found at i:102778869 original size:28 final size:25
Alignment explanation
Indices: 102778816--102778869 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 25
102778806 ATTTTTTTTC
*
102778816 TATTATTATTACTATTACTATTAGT
1 TATTATTATTACTATTACTATCAGT
*
102778841 TATTATTATTATCATATTATTAATCAGT
1 TATTATTATTA-C-TATTACT-ATCAGT
102778869 T
1 T
102778870 TTGCTTTGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 11 0.46
26 1 0.04
27 6 0.25
28 6 0.25
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.56
Consensus pattern (25 bp):
TATTATTATTACTATTACTATCAGT
Found at i:102778935 original size:21 final size:22
Alignment explanation
Indices: 102778902--102778942 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
102778892 ATTCTGTTCC
**
102778902 TTTTATATTTATTTA-CTTAAA
1 TTTTATACATATTTATCTTAAA
102778923 TTTTATACATATTTATCTTA
1 TTTTATACATATTTATCTTA
102778943 TTTTGTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (22 bp):
TTTTATACATATTTATCTTAAA
Found at i:102779723 original size:126 final size:130
Alignment explanation
Indices: 102779517--102779815 Score: 353
Period size: 128 Copynumber: 2.3 Consensus size: 130
102779507 TTGCATTTTG
* * * *
102779517 GAAATTCGAGAAAATCGTGTCCTAACTTACGGGGTTTCGTTTTTTCTCGTCGAATATAAATAGCC
1 GAAATTCGAGAAAATCGTGCCCTAACTTACAGGGTTTCGATTTTCCTCGTCGAATATAAATAGCC
* * * * *
102779582 ACATATCCGTCCAAATTTTAAAATATATG-TTTTCTTAA-AA-ATAAAGGCGATATTCCTTGTTT
66 ACATATCCGTCCAAATTTCAAAATACATGATTTT-TAAATAAGATAAAGGCAATATTCCATGTTT
102779644 A
130 A
* * *
102779645 GAAGTTCGAGAAAATCGTG-CCTAACTTACAGGGTCTCGATTTTCCTCGTC-AATCTAAATAGTC
1 GAAATTCGAGAAAATCGTGCCCTAACTTACAGGGTTTCGATTTTCCTCGTCGAATATAAATAG-C
* *
102779708 GA-ATAGTCC-TTCAAATTTCAAAATACATGATTTTTAAATAAGATAAAGGCAATATTCCATGTT
65 CACATA-TCCGTCCAAATTTCAAAATACATGATTTTTAAATAAGATAAAGGCAATATTCCATGTT
*
102779771 TG
129 TA
* * *
102779773 GAAATTCGA-AAGATCGTGCCCTAACGTACTGGGTTTCGATTTT
1 GAAATTCGAGAAAATCGTGCCCTAACTTACAGGGTTTCGATTTT
102779816 TCTTGTTTAA
Statistics
Matches: 146, Mismatches: 19, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
126 33 0.23
127 46 0.32
128 67 0.46
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.34
Consensus pattern (130 bp):
GAAATTCGAGAAAATCGTGCCCTAACTTACAGGGTTTCGATTTTCCTCGTCGAATATAAATAGCC
ACATATCCGTCCAAATTTCAAAATACATGATTTTTAAATAAGATAAAGGCAATATTCCATGTTTA
Found at i:102779859 original size:128 final size:128
Alignment explanation
Indices: 102779622--102779865 Score: 271
Period size: 128 Copynumber: 1.9 Consensus size: 128
102779612 TTTCTTAAAA
* * * *
102779622 ATAAAGGCGATATTCCTTGTTTAGAAGTTCGAGAAAATCGTGCCTAACTTACAGGGTCTCGATTT
1 ATAAAGGCAATATTCCATGTTTAGAAATTCGAGAAAATCGTGCCTAACGTACAGGGTCTCGATTT
* * * *
102779687 TCCTCGTCAATCTAAATAGTCGAATAGTCCTTCAAATTTCAAAATACATGATTTTTAAATAAG
66 TCCTCGTCAACCCAAATACTCGAATAGTCCTTCAAAATTCAAAATACATGATTTTTAAATAAG
* * * *
102779750 ATAAAGGCAATATTCCATGTTTGGAAATTCGA-AAGATCGTGCCCTAACGTACTGGGTTTCGATT
1 ATAAAGGCAATATTCCATGTTTAGAAATTCGAGAAAATCGTG-CCTAACGTACAGGGTCTCGATT
* * * * *
102779814 TTTCTTGTTTAACCCAAATAACT-GAAT-GTCCTTTTAAAATT-AAAATGCATGA
65 TTCCTCG-TCAACCCAAAT-ACTCGAATAGTCC-TTCAAAATTCAAAATACATGA
102779866 GTTTCGGAAA
Statistics
Matches: 95, Mismatches: 17, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
127 8 0.08
128 66 0.69
129 19 0.20
130 2 0.02
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (128 bp):
ATAAAGGCAATATTCCATGTTTAGAAATTCGAGAAAATCGTGCCTAACGTACAGGGTCTCGATTT
TCCTCGTCAACCCAAATACTCGAATAGTCCTTCAAAATTCAAAATACATGATTTTTAAATAAG
Found at i:102783520 original size:42 final size:42
Alignment explanation
Indices: 102783453--102783539 Score: 122
Period size: 42 Copynumber: 2.1 Consensus size: 42
102783443 ATAGTAAGTT
* *
102783453 ACACAACCTGAGCACACACTCATGTCCTTGCCCGTGTGGCTC
1 ACACAACCTCAGCACACACTCATGTCCTTGCACGTGTGGCTC
* *
102783495 ACACAGCCTCAGCACACGACT-ATGTCCTTGCATGTGTGGCTC
1 ACACAACCTCAGCACAC-ACTCATGTCCTTGCACGTGTGGCTC
102783537 ACA
1 ACA
102783540 TGGCCTAGGC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
42 37 0.93
43 3 0.08
ACGTcount: A:0.23, C:0.36, G:0.20, T:0.22
Consensus pattern (42 bp):
ACACAACCTCAGCACACACTCATGTCCTTGCACGTGTGGCTC
Found at i:102789328 original size:6 final size:6
Alignment explanation
Indices: 102789308--102789347 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
102789298 AAGATGTGGA
* *
102789308 TTTCTT TTCTTTT TTTCTT TTTCTT TTTCTT TTTGTT TTT
1 TTTCTT TT-TCTT TTTCTT TTTCTT TTTCTT TTTCTT TTT
102789348 TAATAAAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
6 25 0.83
7 5 0.17
ACGTcount: A:0.00, C:0.12, G:0.03, T:0.85
Consensus pattern (6 bp):
TTTCTT
Found at i:102789347 original size:19 final size:19
Alignment explanation
Indices: 102789308--102789348 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
102789298 AAGATGTGGA
*
102789308 TTTCTTTTCTTTTTTTCTT
1 TTTCTTTTCTTTTTGTCTT
102789327 TTTCTTTTTCTTTTTGT-TT
1 TTTC-TTTTCTTTTTGTCTT
102789346 TTT
1 TTT
102789349 AATAAAATGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.00, C:0.12, G:0.02, T:0.85
Consensus pattern (19 bp):
TTTCTTTTCTTTTTGTCTT
Found at i:102789348 original size:13 final size:12
Alignment explanation
Indices: 102789308--102789348 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
102789298 AAGATGTGGA
102789308 TTTCTTTTCTTTT
1 TTTCTTTT-TTTT
*
102789321 TTTCTTTTTCTT
1 TTTCTTTTTTTT
102789333 TTTCTTTTTGTTT
1 TTTCTTTTT-TTT
102789346 TTT
1 TTT
102789349 AATAAAATGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 12 0.48
13 13 0.52
ACGTcount: A:0.00, C:0.12, G:0.02, T:0.85
Consensus pattern (12 bp):
TTTCTTTTTTTT
Found at i:102789966 original size:2 final size:2
Alignment explanation
Indices: 102789961--102789990 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
102789951 GAATTTTTTA
*
102789961 AT AT AT AT AT AG AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
102789991 TAAAAATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:102799285 original size:24 final size:23
Alignment explanation
Indices: 102799237--102799288 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
102799227 TTTTTGTTGT
*
102799237 TATTATTATATTTCTTAATATTA
1 TATTATTATATTTCTTAATAATA
*
102799260 TATTATATATATATTCTT-TTAATA
1 TATTAT-TATAT-TTCTTAATAATA
102799284 TATTA
1 TATTA
102799289 GGTATATTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 6 0.24
24 14 0.56
25 5 0.20
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (23 bp):
TATTATTATATTTCTTAATAATA
Found at i:102799334 original size:27 final size:25
Alignment explanation
Indices: 102799304--102799376 Score: 85
Period size: 25 Copynumber: 2.8 Consensus size: 25
102799294 ATTCTAAATT
102799304 CTATATTACGTTTATATATATATT-ATA
1 CTATATTA--TTTATATATAT-TTAATA
* * *
102799331 CTATTTTATGTATATATCTTTAATA
1 CTATATTATTTATATATATTTAATA
102799356 CTATATTATTTATATATATTT
1 CTATATTATTTATATATATTT
102799377 TTTTTCTACA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
24 2 0.05
25 30 0.77
27 7 0.18
ACGTcount: A:0.34, C:0.07, G:0.03, T:0.56
Consensus pattern (25 bp):
CTATATTATTTATATATATTTAATA
Found at i:102799419 original size:27 final size:27
Alignment explanation
Indices: 102799335--102799424 Score: 76
Period size: 29 Copynumber: 3.2 Consensus size: 27
102799325 ATTATACTAT
102799335 TTTATGTATATATCTTTAATACTATATTA
1 TTTATGTATATAT-TTTAAT-CTATATTA
* ** *
102799364 TTTATATATAT-TTTTTTTCTACATGTTA
1 TTTATGTATATATTTTAATCT--ATATTA
102799392 TCTTATGTATATATTTTAAT-TATATTA
1 T-TTATGTATATATTTTAATCTATATTA
*
102799419 TGTATG
1 TTTATG
102799425 CATTTTTTTC
Statistics
Matches: 48, Mismatches: 9, Indels: 11
0.71 0.13 0.16
Matches are distributed among these distances:
26 6 0.12
27 10 0.21
28 7 0.15
29 20 0.42
30 5 0.10
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.59
Consensus pattern (27 bp):
TTTATGTATATATTTTAATCTATATTA
Found at i:102799429 original size:22 final size:22
Alignment explanation
Indices: 102799389--102799430 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
102799379 TTTCTACATG
* *
102799389 TTATCTTATGTATATATTTTAA
1 TTATATTATGTATACATTTTAA
*
102799411 TTATATTATGTATGCATTTT
1 TTATATTATGTATACATTTT
102799431 TTTCACTATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.29, C:0.05, G:0.07, T:0.60
Consensus pattern (22 bp):
TTATATTATGTATACATTTTAA
Found at i:102799463 original size:20 final size:20
Alignment explanation
Indices: 102799438--102799496 Score: 57
Period size: 23 Copynumber: 2.9 Consensus size: 20
102799428 TTTTTTCACT
102799438 ATATTATGTACATATTTTTA
1 ATATTATGTACATATTTTTA
** *
102799458 ATATTATCACGTATTTATTTTTT
1 ATATTAT---GTACATATTTTTA
102799481 ATA-TATGTACATATTT
1 ATATTATGTACATATTT
102799497 ATGTAGTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
22 3 0.10
23 13 0.42
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.56
Consensus pattern (20 bp):
ATATTATGTACATATTTTTA
Found at i:102799646 original size:7 final size:8
Alignment explanation
Indices: 102799618--102799651 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
102799608 TATTATTCTA
102799618 ATATTTTG
1 ATATTTTG
102799626 ATATTTTG
1 ATATTTTG
102799634 ATATTTT-
1 ATATTTTG
102799641 ATATTTT-
1 ATATTTTG
102799648 ATAT
1 ATAT
102799652 ACTTTATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 11 0.42
8 15 0.58
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (8 bp):
ATATTTTG
Found at i:102799658 original size:16 final size:15
Alignment explanation
Indices: 102799618--102799651 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
102799608 TATTATTCTA
102799618 ATATTTTGATATTTT
1 ATATTTTGATATTTT
102799633 GATATTTT-ATATTTT
1 -ATATTTTGATATTTT
102799648 ATAT
1 ATAT
102799652 ACTTTATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.22
15 7 0.39
16 7 0.39
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (15 bp):
ATATTTTGATATTTT
Found at i:102806027 original size:21 final size:21
Alignment explanation
Indices: 102805989--102806031 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
102805979 TTTTTTTGTT
*
102805989 GTTTTTTTTTTAAAAAAAAGG
1 GTTTTTTTTATAAAAAAAAGG
102806010 GTTTTTTTTATGATAAAAAAAG
1 GTTTTTTTTAT-A-AAAAAAAG
102806032 AAAGAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 10 0.53
22 1 0.05
23 8 0.42
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.47
Consensus pattern (21 bp):
GTTTTTTTTATAAAAAAAAGG
Found at i:102806142 original size:38 final size:38
Alignment explanation
Indices: 102806047--102806166 Score: 159
Period size: 39 Copynumber: 3.1 Consensus size: 38
102806037 AAATAAAGTA
* *
102806047 TGGTTTTAATTAACAATAAAACAAAATAGTATGGGGAAA
1 TGGTTTTAATTAACAATAAAACAAAATAGCATGGGG-AG
*
102806086 TAGTTTTAATTAACAATAAAACAAAATAGCATGGGGAG
1 TGGTTTTAATTAACAATAAAACAAAATAGCATGGGGAG
* * *
102806124 TGGTTTTGATTAATAATAAAACAAAGTAGCATGAGGGGAG
1 TGGTTTTAATTAACAATAAAACAAAATAGCAT--GGGGAG
102806164 TGG
1 TGG
102806167 AATCAGTTTT
Statistics
Matches: 72, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
38 29 0.40
39 34 0.47
40 9 0.12
ACGTcount: A:0.44, C:0.06, G:0.23, T:0.28
Consensus pattern (38 bp):
TGGTTTTAATTAACAATAAAACAAAATAGCATGGGGAG
Found at i:102806704 original size:24 final size:25
Alignment explanation
Indices: 102806663--102806710 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
102806653 TGTATATACC
102806663 ATGTAAATATTTTAATAT-TATATT
1 ATGTAAATATTTTAATATATATATT
*
102806687 ATGTATATA-TTTATATATATATAT
1 ATGTAAATATTTTA-ATATATATAT
102806711 CTTTTAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 4 0.19
24 12 0.57
25 5 0.24
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (25 bp):
ATGTAAATATTTTAATATATATATT
Found at i:102810630 original size:15 final size:15
Alignment explanation
Indices: 102810610--102810640 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
102810600 TTTACTTTCC
102810610 AGAGAGGTAGAAAAG
1 AGAGAGGTAGAAAAG
102810625 AGAGAGGTAGAAAAG
1 AGAGAGGTAGAAAAG
102810640 A
1 A
102810641 AAATCTAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.39, T:0.06
Consensus pattern (15 bp):
AGAGAGGTAGAAAAG
Found at i:102819168 original size:210 final size:210
Alignment explanation
Indices: 102818618--102819589 Score: 1180
Period size: 210 Copynumber: 4.7 Consensus size: 210
102818608 CTTCATCGGG
* * * *
102818618 GCAGATCTAAGATGACAGATCTTATCTCTTTGTATTCAGC-GGAGAGCATATCGAAGATATAGTT
1 GCAGATCCAAGATGACAGATCTTATCTCTTTGTATTCGGCAGG-GAGCAAATCGAAGATATAGCT
* *
102818682 GATTTGGCTTTCACGTGTTTACGATGAAGCAAATATAAGATGATTTGTCGTCTCTGTATTGTCAG
65 GATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTAGTCTCTGTATTGTCAG
** * *
102818747 AGAATGAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTGACCTTC
130 AGAACAAATCGAAGTCTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTTACCTTC
*
102818812 AGATGTTTATGCTGAA
195 AGATGTTTACGCTGAA
* ** * * ** * * *
102818828 GCGGATCCAAGATG---G-T-TTGGCATCCTTGTGTT-TACAAGGAACAAATCGAAGACATAGCT
1 GCAGATCCAAGATGACAGATCTTATC-TCTTTGTATTCGGCAGGGAGCAAATCGAAGATATAGCT
* * * *
102818887 GATTTGGTTTTCACGTGTTTACGTTGAAACAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAG
65 GATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTAGTCTCTGTATTGTCAG
*
102818952 AGAACAAATCGAAGTCTGGCAT-TTCCACTTTGATGGA-AGGCAGGCACATAGCAGATCTTACCT
130 AGAACAAATCGAAGTCTGGCATCTT-CACTTTGATGGAGA-GCAGACACATAGCAGATCTTACCT
102819015 TCAGATGTTTACGCTGAA
193 TCAGATGTTTACGCTGAA
*
102819033 GCAGATCCAAGATGACAGATCTTATCTCTTTGTATTCGGCAGGGAGCAGATCGAAGATATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTTTGTATTCGGCAGGGAGCAAATCGAAGATATAGCTG
* *
102819098 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATATAAGATGATTTGTAGTTTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTAGTCTCTGTATTGTCAGA
*
102819163 GAACAAATCGAAGTCTGGCAT-TTCCACTTTGATGGA-AGACAGACACATAGCAGATCTTACCCT
131 GAACAAATCGAAGTCTGGCATCTT-CACTTTGATGGAGAG-CAGACACATAGCAGATCTTACCTT
102819226 CAGATGTTTACGCTGAA
194 CAGATGTTTACGCTGAA
* * * * *
102819243 GCAGATCCAAGATGACAAATCTTATCTCTCTGTATTCGGAAGGGAACAGATCGAAGATATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTTTGTATTCGGCAGGGAGCAAATCGAAGATATAGCTG
* *
102819308 ATTTGGCTTTCACGTGTTTTCGATGAAGCAAATCTAAGATGATTTGTTGTCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTAGTCTCTGTATTGTCAGA
** * * * *
102819373 GAATGAATCAAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTCACCTTCG
131 GAACAAATCGAAGTCTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTTACCTTCA
* *
102819438 GATGTTTATGCTAAA
196 GATGTTTACGCTGAA
* * * *
102819453 GCGGATCCAAGATG---G-T-TTGGCATC-CTTATG-CTT--ACAAGGAGCAAATCG-A-ATCAT
1 GCAGATCCAAGATGACAGATCTT---ATCTCTT-TGTATTCGGCAGGGAGCAAATCGAAGAT-AT
* * * * *
102819507 AGTTGATTTGGCTTTCACGTGCTTACGTTAAAGCAAATCTAAGATGATTTGGCA-TCTCTGTATT
61 AGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTT-GTAGTCTCTGTATT
*
102819571 GTCAGGGAACAAATCGAAG
125 GTCAGAGAACAAATCGAAG
102819590 AAGCAGATTT
Statistics
Matches: 664, Mismatches: 79, Indels: 44
0.84 0.10 0.06
Matches are distributed among these distances:
203 2 0.00
204 76 0.11
205 178 0.27
206 11 0.02
207 5 0.01
208 6 0.01
209 10 0.02
210 372 0.56
211 4 0.01
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (210 bp):
GCAGATCCAAGATGACAGATCTTATCTCTTTGTATTCGGCAGGGAGCAAATCGAAGATATAGCTG
ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTAGTCTCTGTATTGTCAGA
GAACAAATCGAAGTCTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTTACCTTCA
GATGTTTACGCTGAA
Found at i:102821092 original size:38 final size:39
Alignment explanation
Indices: 102820994--102821112 Score: 150
Period size: 39 Copynumber: 3.1 Consensus size: 39
102820984 AAATAAAGTA
* * *
102820994 TGGTTTTAATTAACAATAAAACAAAATAGTATAGGGAAA
1 TGGTTTTAATTAACAATAAAACAAAATAGCATAGGGGAG
**
102821033 TAATTTTAATTAACAATAAAACAAAATAGCAT-GGGGAG
1 TGGTTTTAATTAACAATAAAACAAAATAGCATAGGGGAG
* * * *
102821071 TGGTTTTGATTAATAATAAAACAAAGTAGCATGGGGGAG
1 TGGTTTTAATTAACAATAAAACAAAATAGCATAGGGGAG
102821110 TGG
1 TGG
102821113 AATAAGCTTT
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
38 31 0.45
39 38 0.55
ACGTcount: A:0.45, C:0.06, G:0.21, T:0.28
Consensus pattern (39 bp):
TGGTTTTAATTAACAATAAAACAAAATAGCATAGGGGAG
Found at i:102826094 original size:3 final size:3
Alignment explanation
Indices: 102826086--102826147 Score: 106
Period size: 3 Copynumber: 20.7 Consensus size: 3
102826076 TAAATGAGAA
* *
102826086 AAT AAT AAT AAT AAT AAT AAT AAC AAT AAC AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
102826134 AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AA
102826148 CAACGAGAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:102827194 original size:177 final size:177
Alignment explanation
Indices: 102826889--102827668 Score: 1197
Period size: 177 Copynumber: 4.4 Consensus size: 177
102826879 CGGGCTCTCT
* * *
102826889 TACATAGAGATAAGACTCGCCATCTTTGATCTACTCCATTACTGCTTAGGGAGATAAGATCTGTA
1 TACATGGAGATAAGACTCGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTA
* * * *
102826954 ATTTTCAGTCTGCTTCCTTGCTACTTCAAGAAGATAAGACTTGTATCTTCAACATACTCTCTTGC
66 ATTTTCAGTCCGCTTCCTTGCTACCTCAAGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGC
102827019 TACATCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGA
131 TACATCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGA
* * * *
102827066 TACATGGAAATAAGACTCGCCATCTTTGATCTGCTCCGCTACTGCTCAGGGAGATAAGATCTATA
1 TACATGGAGATAAGACTCGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTA
*
102827131 ATTTTCAGTCCGCTTCTTTGCTACCTCAAGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGC
66 ATTTTCAGTCCGCTTCCTTGCTACCTCAAGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGC
* *
102827196 TACATCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTTCATAGCCGA
131 TACATCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGA
* *
102827243 TACATGGAGATAAGACTCGCCATCTTTGATCTGCTCCACTACTGCTTAGAGAGATGAGATCTGTA
1 TACATGGAGATAAGACTCGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTA
* * *
102827308 ATTTTCAGTTCGCTTCCTTGCTACCTCAGGAAGATAAGACTTGTATATTCAACCTGCTCTCTTGC
66 ATTTTCAGTCCGCTTCCTTGCTACCTCAAGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGC
*
102827373 TACATCAGAGAGATAAGACTGGTGTG-TAAAATCTGCTCCATAGCCGA
131 TACATCAGAGAGATAAGGCTGGTG-GCTAAAATCTGCTCCATAGCCGA
* ** * *
102827420 TACATGGAGATAAGACTCGCTATCTTTGATCTGCTCTGCTACTACTTAGGGAGATAAGATCTGCA
1 TACATGGAGATAAGACTCGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTA
*
102827485 ATTTTTAGTCCGCTTCCTTGCTACCTC-AGAAAGATAAGACTTGTATCTTCAACCTGCTCTCTTG
66 ATTTTCAGTCCGCTTCCTTGCTACCTCAAG-AAGATAAGACTTGTATCTTCAACCTGCTCTCTTG
* * * *
102827549 CTACATCAGAGAGATAAGGTTGGCGGCTAAAATTTGCTTCATAGCCGA
130 CTACATCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGA
* * * * *
102827597 TACATGGAGATAAGACTTGCCAT-TTTCTATCTGCTCCACTACTGCTTAGAGAGATAAGATATAT
1 TACATGGAGATAAGACTCGCCATCTTT-GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
102827661 AATTTTCA
65 AATTTTCA
102827669 CCGATGTTGC
Statistics
Matches: 545, Mismatches: 54, Indels: 8
0.90 0.09 0.01
Matches are distributed among these distances:
176 5 0.01
177 539 0.99
178 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (177 bp):
TACATGGAGATAAGACTCGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTA
ATTTTCAGTCCGCTTCCTTGCTACCTCAAGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGC
TACATCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGA
Found at i:102840192 original size:3 final size:3
Alignment explanation
Indices: 102840184--102840222 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
102840174 TTAGGAGGGA
*
102840184 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
102840223 TAATTTTACC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:102841859 original size:96 final size:95
Alignment explanation
Indices: 102841745--102841939 Score: 336
Period size: 96 Copynumber: 2.0 Consensus size: 95
102841735 AAATTTAGTT
102841745 TTTACTTTTAGTTTCTTTTTCTGATTTGTAAATTTAGGTTTTAGTTTTTTTATTGATTAATGTTT
1 TTTACTTTTAGTTTCTTTTTCTGATTTGTAAATTTAGGTTTTAGTTTTTTTATTGATTAATGTTT
* * *
102841810 AATGTTTTTATTATTATATTTTATATTAATC
66 AATGTTTTTATTATTAT-CTTCATATTAATA
* *
102841841 TTTAGTTTTAGTTTCTTTTTCTGATTTGTGAATTTAGGTTTTAGTTTTTTTATTGATTAATGTTT
1 TTTACTTTTAGTTTCTTTTTCTGATTTGTAAATTTAGGTTTTAGTTTTTTTATTGATTAATGTTT
102841906 AATGTTTTTATTATTATCTTCATATTAATA
66 AATGTTTTTATTATTATCTTCATATTAATA
102841936 TTTA
1 TTTA
102841940 ATTTAGAATT
Statistics
Matches: 94, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
95 14 0.15
96 80 0.85
ACGTcount: A:0.23, C:0.04, G:0.10, T:0.63
Consensus pattern (95 bp):
TTTACTTTTAGTTTCTTTTTCTGATTTGTAAATTTAGGTTTTAGTTTTTTTATTGATTAATGTTT
AATGTTTTTATTATTATCTTCATATTAATA
Found at i:102844010 original size:15 final size:15
Alignment explanation
Indices: 102843992--102844039 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
102843982 AATTATTAAT
*
102843992 ATATGATATGATATG
1 ATATGATATAATATG
*
102844007 ATATGATATAATATA
1 ATATGATATAATATG
* *
102844022 ACATTATATAATAT-
1 ATATGATATAATATG
102844036 ATAT
1 ATAT
102844040 ATAGTAGAAG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
14 3 0.11
15 25 0.89
ACGTcount: A:0.48, C:0.02, G:0.08, T:0.42
Consensus pattern (15 bp):
ATATGATATAATATG
Found at i:102844191 original size:25 final size:26
Alignment explanation
Indices: 102844144--102844192 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
102844134 AATATATTAT
*
102844144 GTATTACTATTATAATATGTGATATA
1 GTATTACTATTAAAATATGTGATATA
102844170 GTATTAC-ATTAAAACTAT-TGATA
1 GTATTACTATTAAAA-TATGTGATA
102844193 CATAAATAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.41, C:0.06, G:0.10, T:0.43
Consensus pattern (26 bp):
GTATTACTATTAAAATATGTGATATA
Found at i:102846438 original size:6 final size:6
Alignment explanation
Indices: 102846399--102846552 Score: 89
Period size: 6 Copynumber: 26.0 Consensus size: 6
102846389 ATTTTACCAC
* * *** * *
102846399 TATTAT TATTAC TATCAT TATTAT TGCCAT TATTAT TATTAC TATTAC
1 TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT
** * * * * **
102846447 TGGTAT TATT-T T-TTAT TATCAT TGTTAT TATTTT TATTTT TATTGC
1 TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT
* * * * *
102846493 TATTAT TTTTAT TATTAA TATTAT TATTGT TA-TATT TAGTAT TATTTT
1 TATTAT TATTAT TATTAT TATTAT TATTAT TATTA-T TATTAT TATTAT
*
102846541 TATTTT TATTAT
1 TATTAT TATTAT
102846553 AACTACTACT
Statistics
Matches: 110, Mismatches: 34, Indels: 8
0.72 0.22 0.05
Matches are distributed among these distances:
4 2 0.02
5 5 0.05
6 101 0.92
7 2 0.02
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.64
Consensus pattern (6 bp):
TATTAT
Found at i:102846445 original size:15 final size:15
Alignment explanation
Indices: 102846399--102846520 Score: 71
Period size: 15 Copynumber: 8.7 Consensus size: 15
102846389 ATTTTACCAC
102846399 TATTATTATTACTAT
1 TATTATTATTACTAT
* * *
102846414 CATTATTATTGCCAT
1 TATTATTATTACTAT
102846429 TATTATTATTACTAT
1 TATTATTATTACTAT
* **
102846444 TACTGGTATTA-T-T
1 TATTATTATTACTAT
*
102846457 TTTTATTA-T-C-AT
1 TATTATTATTACTAT
*
102846469 TGTTATTATT--T-T
1 TATTATTATTACTAT
* *
102846481 TATTTTTATTGCTAT
1 TATTATTATTACTAT
* * *
102846496 TATTTTTATTATTAA
1 TATTATTATTACTAT
102846511 TATTATTATT
1 TATTATTATT
102846521 GTTATATTTA
Statistics
Matches: 80, Mismatches: 20, Indels: 14
0.70 0.18 0.12
Matches are distributed among these distances:
12 18 0.22
13 6 0.08
14 2 0.03
15 54 0.68
ACGTcount: A:0.27, C:0.07, G:0.04, T:0.62
Consensus pattern (15 bp):
TATTATTATTACTAT
Done.