Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 330 of 356
Found at i:106267163 original size:36 final size:34
Alignment explanation
Indices: 106267084--106267166 Score: 96
Period size: 34 Copynumber: 2.4 Consensus size: 34
106267074 TTATACCATC
*
106267084 TTATGTATATATTTTTAAATACTATATTGTATAT
1 TTATGTATATATTCTTAAATACTATATTGTATAT
* * *
106267118 GTATATATATATTCTT-AGTACTATATTACGTATAT
1 TTATGTATATATTCTTAAATACTATATT--GTATAT
106267153 ATTATGTATATATT
1 -TTATGTATATATT
106267167 TATTTTTACC
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
33 10 0.25
34 13 0.32
35 6 0.15
36 11 0.28
ACGTcount: A:0.35, C:0.05, G:0.07, T:0.53
Consensus pattern (34 bp):
TTATGTATATATTCTTAAATACTATATTGTATAT
Found at i:106274278 original size:14 final size:14
Alignment explanation
Indices: 106274259--106274288 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
106274249 CGCTGAGGTA
*
106274259 TTTTCAATTTTTGT
1 TTTTCAATTTATGT
106274273 TTTTCAATTTATGT
1 TTTTCAATTTATGT
106274287 TT
1 TT
106274289 CAAAAAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.07, G:0.07, T:0.70
Consensus pattern (14 bp):
TTTTCAATTTATGT
Found at i:106274350 original size:91 final size:86
Alignment explanation
Indices: 106274112--106274597 Score: 656
Period size: 89 Copynumber: 5.5 Consensus size: 86
106274102 TATTTCTGTC
*
106274112 TTTCAAAAAAATCAA-TCATATTGCGAGAGGTGAGTTGGGCCTCAGGTCACACGCTGAGGTATTT
1 TTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT--CACGCTGAGGTATTT
106274176 TCAATTT-TCGTTTTTCAATTTATG
63 TCAATTTCT-GTTTTTCAATTTATG
* *
106274200 TTTCAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCA
1 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCA
*
106274265 ATTTTTGTTTTTCAATTTATG
66 ATTTCTGTTTTTCAATTTATG
* *
106274286 TTTCAAAAAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGTCATGCTGAGGTAT
1 TTTC-----AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTAT
*
106274351 TTTCAATTTCTGTTTTTCAATTTCTG
61 TTTCAATTTCTGTTTTTCAATTTATG
* *
106274377 TCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGGGCCTCAGGTCACACGTTGAGGTAT
1 --TTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT--CACGCTGAGGTAT
* *
106274442 TTTCGATTTCCGTTTTTTCAATTTATG
61 TTTCAATTTCTG-TTTTTCAATTTATG
106274469 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCACTTGCTGAGGTATTT
1 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-TCAC--GCTGAGGTATTT
* *
106274533 TCAATTTCTATTTTTCAATTCATG
63 TCAATTTCTGTTTTTCAATTTATG
*
106274557 TTTC-CAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
106274598 TTTAATTTTT
Statistics
Matches: 360, Mismatches: 23, Indels: 31
0.87 0.06 0.07
Matches are distributed among these distances:
86 41 0.11
87 50 0.14
88 52 0.14
89 99 0.28
90 4 0.01
91 97 0.27
92 13 0.04
93 4 0.01
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (86 bp):
TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCA
ATTTCTGTTTTTCAATTTATG
Found at i:106274369 original size:14 final size:14
Alignment explanation
Indices: 106274350--106274384 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
106274340 TGCTGAGGTA
106274350 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
106274364 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
*
106274378 CTTTCAA
1 TTTTCAA
106274385 AAAAATCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.17, C:0.17, G:0.06, T:0.60
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:106274526 original size:180 final size:174
Alignment explanation
Indices: 106274112--106274597 Score: 680
Period size: 180 Copynumber: 2.7 Consensus size: 174
106274102 TATTTCTGTC
* *
106274112 TTTCAAAAAAATCAA-TCATATTGCGAGAGGTGAGTTGGGCCTCAGGTCACACGCTGAGGTATTT
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCAC-TGCTGAGGTATTT
* *
106274176 TCAATTT-TCGTTTTTCAATTTATGTTTCAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGC
65 TCAATTTCT-GTTTTTCAATTTCTGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
**
106274240 CTCAGGACACGCTGAGGTATTTTCAATTTTTGTTTTTCAATTTATG
129 CTCAGGACACGCTGAGGTATTTTCAATTTCCGTTTTTCAATTTATG
*
106274286 TTTCAAAAAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGTCA-TGCTGAGGTA
1 TTTC----AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACTGCTGAGGTA
106274350 TTTTCAATTTCTGTTTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGT
62 TTTTCAATTTCTGTTTTTCAATTTCTG--TTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGT
* * *
106274415 TGGGCCTCAGGTCACACGTTGAGGTATTTTCGATTTCCGTTTTTTCAATTTATG
124 TGAGCCTCAGG--ACACGCTGAGGTATTTTCAATTTCCG-TTTTTCAATTTATG
106274469 TTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCACTTGCTGAGGTATT
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-TCAC-TGCTGAGGTATT
* *
106274532 TTCAATTTCTATTTTTCAA-TTCATGTTTC-CAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
64 TTCAATTTCTGTTTTTCAATTTC-TGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
106274595 CCT
128 CCT
106274598 TTTAATTTTT
Statistics
Matches: 282, Mismatches: 14, Indels: 30
0.87 0.04 0.09
Matches are distributed among these distances:
174 4 0.01
176 35 0.12
177 35 0.12
178 57 0.20
179 39 0.14
180 72 0.26
182 22 0.08
183 18 0.06
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (174 bp):
TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACTGCTGAGGTATTTT
CAATTTCTGTTTTTCAATTTCTGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
CAGGACACGCTGAGGTATTTTCAATTTCCGTTTTTCAATTTATG
Found at i:106274621 original size:54 final size:54
Alignment explanation
Indices: 106274557--106275032 Score: 835
Period size: 54 Copynumber: 8.8 Consensus size: 54
106274547 TCAATTCATG
* *
106274557 TTTCCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTTTGTT
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTT
* *
106274611 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACTTTTTAATTTCTGTT
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTT
* *
106274665 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACTTTTTAATTTCTGTT
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTT
106274719 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTT
1 TTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTT
106274775 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTT
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTT
* * *
106274829 TATCAAAAATCAACTCATATTACGAGAGATGAGTTGAGCCTTTTAATTTCTGTT
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTT
*
106274883 TTTCAAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTTTTAATTTCTGTT
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTT
106274937 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTT
1 TTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTT
106274992 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
106275033 CGGGTCACAT
Statistics
Matches: 405, Mismatches: 14, Indels: 6
0.95 0.03 0.01
Matches are distributed among these distances:
54 300 0.74
55 53 0.13
56 52 0.13
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.38
Consensus pattern (54 bp):
TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTT
Found at i:106274837 original size:164 final size:162
Alignment explanation
Indices: 106274557--106275028 Score: 827
Period size: 164 Copynumber: 2.9 Consensus size: 162
106274547 TCAATTCATG
* *
106274557 TTTCCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTTTGTTTTTCAAAAATC
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAAAATC
* *
106274622 AACTCATATTGCGAGAGGTGAGTTGAACTTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTG
66 AACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTG
*
106274687 CGAGAGGTGAGTTGAACTTTTTAATTTCTGTT
131 CGAGAGGTGAGTTGAACCTTTTAATTTCTGTT
106274719 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAAAA
1 TTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAAAA
*
106274784 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTATCAAAAATCAACTCATAT
64 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAAAATCAACTCATAT
* * *
106274849 TACGAGAGATGAGTTGAGCCTTTTAATTTCTGTT
129 TGCGAGAGGTGAGTTGAACCTTTTAATTTCTGTT
*
106274883 TTTCAAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAAAAAT
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTC-AAAAAT
106274948 CAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAAAATCAACTCATATT
65 CAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAAAATCAACTCATATT
106275013 GCGAGAGGTGAGTTGA
130 GCGAGAGGTGAGTTGA
106275029 GCCTCGGGTC
Statistics
Matches: 294, Mismatches: 13, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
162 57 0.19
163 84 0.29
164 153 0.52
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.39
Consensus pattern (162 bp):
TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAAAATC
AACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTG
CGAGAGGTGAGTTGAACCTTTTAATTTCTGTT
Found at i:106275091 original size:50 final size:50
Alignment explanation
Indices: 106275001--106275098 Score: 126
Period size: 50 Copynumber: 2.0 Consensus size: 50
106274991 TTTTCAAAAA
* ** * *
106275001 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGTCGAGAG
1 TCAACTCATATTGCAAGAAATGAGTTGAGCCTCAGATCACATGTCGAGAG
*
106275051 TCAATTCATATTGCAAGAAATGAGTTGAG-CTCAAGATCACATGTCGAG
1 TCAACTCATATTGCAAGAAATGAGTTGAGCCTC-AGATCACATGTCGAG
106275099 TAAAGAATAA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
49 3 0.07
50 38 0.93
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.26
Consensus pattern (50 bp):
TCAACTCATATTGCAAGAAATGAGTTGAGCCTCAGATCACATGTCGAGAG
Found at i:106277015 original size:24 final size:24
Alignment explanation
Indices: 106276978--106277085 Score: 73
Period size: 24 Copynumber: 4.4 Consensus size: 24
106276968 GTATATATTG
*
106276978 TATATGTTTTATA-TATGTTATGTA
1 TATAT-TTTTATACCATGTTATGTA
**
106277002 TATATTTTTAATATTACTAGTTA--TA
1 TATATTTTT-ATACCA-T-GTTATGTA
106277027 TATATTTCTTATA-CAT-TTCCATGTA
1 TATATTT-TTATACCATGTT--ATGTA
* *
106277052 CATATTTTTATACCATCTTATGTA
1 TATATTTTTATACCATGTTATGTA
106277076 TATATTTTTA
1 TATATTTTTA
106277086 AATACTATAT
Statistics
Matches: 70, Mismatches: 3, Indels: 22
0.74 0.03 0.23
Matches are distributed among these distances:
21 2 0.03
23 6 0.09
24 28 0.40
25 25 0.36
26 5 0.07
27 4 0.06
ACGTcount: A:0.31, C:0.08, G:0.06, T:0.56
Consensus pattern (24 bp):
TATATTTTTATACCATGTTATGTA
Found at i:106277148 original size:36 final size:34
Alignment explanation
Indices: 106277069--106277151 Score: 96
Period size: 34 Copynumber: 2.4 Consensus size: 34
106277059 TTATACCATC
*
106277069 TTATGTATATATTTTTAAATACTATATTGTATAT
1 TTATGTATATATTCTTAAATACTATATTGTATAT
* * *
106277103 GTATATATATATTCTT-AGTACTATATTACGTATAT
1 TTATGTATATATTCTTAAATACTATATT--GTATAT
106277138 ATTATGTATATATT
1 -TTATGTATATATT
106277152 TATTTTTACC
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
33 10 0.25
34 13 0.32
35 6 0.15
36 11 0.28
ACGTcount: A:0.35, C:0.05, G:0.07, T:0.53
Consensus pattern (34 bp):
TTATGTATATATTCTTAAATACTATATTGTATAT
Found at i:106291519 original size:19 final size:19
Alignment explanation
Indices: 106291495--106291534 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
106291485 ATTGAATTAT
*
106291495 TTTAGTTTAATTTTTTTTA
1 TTTAGTTTAATTTTGTTTA
*
106291514 TTTAGTTTACTTTTGTTTA
1 TTTAGTTTAATTTTGTTTA
106291533 TT
1 TT
106291535 AATTTCAACC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.17, C:0.03, G:0.07, T:0.72
Consensus pattern (19 bp):
TTTAGTTTAATTTTGTTTA
Found at i:106299987 original size:22 final size:21
Alignment explanation
Indices: 106299957--106300000 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
106299947 AAAATAAATT
*
106299957 TTATTTAAATTTAATCATAAAA
1 TTATATAAATTTAAT-ATAAAA
*
106299979 TTATATAAATTTTATATAAAA
1 TTATATAAATTTAATATAAAA
106300000 T
1 T
106300001 AATTTGTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (21 bp):
TTATATAAATTTAATATAAAA
Found at i:106299995 original size:11 final size:11
Alignment explanation
Indices: 106299950--106299998 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
106299940 AATAATAAAA
106299950 ATAAATTTTAT
1 ATAAATTTTAT
* *
106299961 TTAAATTTAAT
1 ATAAATTTTAT
*
106299972 CATAAA-ATTAT
1 -ATAAATTTTAT
106299983 ATAAATTTTAT
1 ATAAATTTTAT
106299994 ATAAA
1 ATAAA
106299999 ATAATTTGTA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
10 5 0.17
11 21 0.70
12 4 0.13
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (11 bp):
ATAAATTTTAT
Found at i:106303769 original size:21 final size:21
Alignment explanation
Indices: 106303743--106303783 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
106303733 ATCTACTCAA
* *
106303743 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
106303764 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
106303784 TTGCTCGTCT
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:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:106308469 original size:160 final size:162
Alignment explanation
Indices: 106308280--106308608 Score: 418
Period size: 167 Copynumber: 2.0 Consensus size: 162
106308270 AAAAAAAAGG
** *
106308280 AAAACATACACACCCATGTATCATTAAATAGCATTAATGTTATTGACAATT-TTTAGTTTTTTTT
1 AAAACATACACACCCATGTATCATTAAATAGCATTAATGTTATT----ATTGTCAAATTTTTTTT
* * *
106308344 TTATTTGGAAA-ATTTTG-GA-AT-AA-TCCAAGCAGCCTTACTTGAATGCTTTTATATATTTTG
62 TCATTTGGAAAGATTTTGAAACATAAAGTCCAAGCAGCCTTAATTGAATGCTTTTATATATTTTG
*
106308404 AATAATTATAGAGTCACCATGGTTTTTAGGGAATCC
127 AATAATTATAAAGTCACCATGGTTTTTAGGGAATCC
* * * *
106308440 AAAACATATATACCCATGTATCATTAAATAGTATTAATGTTGTTATTGTCAAATTTTTTTTTCAT
1 AAAACATACACACCCATGTATCATTAAATAGCATTAATGTTATTATTGTCAAATTTTTTTTTCAT
* *
106308505 TTGGAAAGTTTTTGAATAATCATAAAGTGTCCAAGCAGTCTTAATTGAATGCTTTTATATATTTT
66 TTGGAAAGATTTTG-A-AA-CATAAA--GTCCAAGCAGCCTTAATTGAATGCTTTTATATATTTT
106308570 GAATAATTATAAAGTCACCATGGTTTTTAGGGAATCC
126 GAATAATTATAAAGTCACCATGGTTTTTAGGGAATCC
106308607 AA
1 AA
106308609 TGAAACACTC
Statistics
Matches: 145, Mismatches: 13, Indels: 15
0.84 0.08 0.09
Matches are distributed among these distances:
156 3 0.02
157 20 0.14
158 5 0.03
160 40 0.28
161 1 0.01
163 2 0.01
164 2 0.01
167 72 0.50
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.41
Consensus pattern (162 bp):
AAAACATACACACCCATGTATCATTAAATAGCATTAATGTTATTATTGTCAAATTTTTTTTTCAT
TTGGAAAGATTTTGAAACATAAAGTCCAAGCAGCCTTAATTGAATGCTTTTATATATTTTGAATA
ATTATAAAGTCACCATGGTTTTTAGGGAATCC
Found at i:106309487 original size:12 final size:12
Alignment explanation
Indices: 106309470--106309506 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
106309460 ACAAATAATT
106309470 TAAAAATTATAA
1 TAAAAATTATAA
*
106309482 TAAAAATTAAAA
1 TAAAAATTATAA
106309494 TAAAAATTCATAA
1 TAAAAATT-ATAA
106309507 ACTAAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 19 0.86
13 3 0.14
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (12 bp):
TAAAAATTATAA
Found at i:106311989 original size:20 final size:20
Alignment explanation
Indices: 106311937--106311996 Score: 54
Period size: 20 Copynumber: 3.0 Consensus size: 20
106311927 CATAGGCTTT
106311937 AAATA-ATAATTT--TATAA
1 AAATATATAATTTAATATAA
*
106311954 ACAATTTATTATATTTAATATAA
1 A-AATATA-TA-ATTTAATATAA
*
106311977 AAATATATAATTTAACATAA
1 AAATATATAATTTAATATAA
106311997 TTTAATGATA
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
17 1 0.03
18 3 0.09
19 1 0.03
20 12 0.35
21 6 0.18
22 5 0.15
23 6 0.18
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (20 bp):
AAATATATAATTTAATATAA
Found at i:106315740 original size:18 final size:19
Alignment explanation
Indices: 106315702--106315743 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
106315692 TCTTTAGATT
* *
106315702 TTTTTTAAAAAATTTATAA
1 TTTTTCAAAAAATATATAA
106315721 TTTTTCAAAAAATATA-AA
1 TTTTTCAAAAAATATATAA
106315739 TTTTT
1 TTTTT
106315744 GAATTTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
TTTTTCAAAAAATATATAA
Found at i:106322592 original size:21 final size:22
Alignment explanation
Indices: 106322561--106322630 Score: 76
Period size: 21 Copynumber: 3.3 Consensus size: 22
106322551 GTACATCATT
*
106322561 AACAG-AAGCTCATAAGGGCT-
1 AACAGAAAGCTCATAAGAGCTG
*
106322581 AATCA-AAAGCTCGTAAGAGCTG
1 AA-CAGAAAGCTCATAAGAGCTG
*
106322603 AACAGAAA-CTCATAAGAGTTG
1 AACAGAAAGCTCATAAGAGCTG
106322624 AACAGAA
1 AACAGAA
106322631 CCTTGTAAGA
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
20 2 0.05
21 35 0.83
22 5 0.12
ACGTcount: A:0.46, C:0.17, G:0.21, T:0.16
Consensus pattern (22 bp):
AACAGAAAGCTCATAAGAGCTG
Found at i:106322639 original size:21 final size:21
Alignment explanation
Indices: 106322590--106322669 Score: 79
Period size: 21 Copynumber: 3.8 Consensus size: 21
106322580 TAATCAAAAG
106322590 CTCGTAAGAGCTGAACAGAAA
1 CTCGTAAGAGCTGAACAGAAA
* * *
106322611 CTCATAAGAGTTGAACAGAAC
1 CTCGTAAGAGCTGAACAGAAA
* * * *
106322632 CTTGTAAGAGCTTAATAGAAG
1 CTCGTAAGAGCTGAACAGAAA
* *
106322653 CTCGAAAGAGCTAAACA
1 CTCGTAAGAGCTGAACA
106322670 AAAAGTAAAA
Statistics
Matches: 46, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.42, C:0.17, G:0.21, T:0.19
Consensus pattern (21 bp):
CTCGTAAGAGCTGAACAGAAA
Found at i:106324762 original size:174 final size:174
Alignment explanation
Indices: 106324436--106324786 Score: 463
Period size: 174 Copynumber: 2.0 Consensus size: 174
106324426 AGTCACTCTG
** *
106324436 GTTTCAATTCAATCACTCAACTTTTGGAAAAATAACAAAACAGTCACTAACGTTATCAAAAAATG
1 GTTTCAATTCAATCACTCAACTTTTAAAAAAATAACAAAACAGTCACTAACATTATCAAAAAATG
* * ** *
106324501 ACAAATCAGTCACCCATTAACATTTTCTGTTACAAGCCTAACGGGATAGGTGACGTGGCCAATTA
66 ACAAATCAGTCACCCATTAACATTTTCTGTTACAAGCCTAACGAGACAGGTGACGCAGCCAATAA
* * *
106324566 ACTAGCTGATGTAGCCAATTAACTTGCCACGTTGGACGAGGTAAA
131 ACTAGCTAATGTAGCCAATTAACTTGCCAC-TTAGACGAGGCAAA
* * *
106324611 GTTTCAATTCAATCACTCAAC-TTTAAAAAAATAACAAATCAGTCACTAACATTATCGAAAAGTG
1 GTTTCAATTCAATCACTCAACTTTTAAAAAAATAACAAAACAGTCACTAACATTATCAAAAAATG
* * ***
106324675 ACAAATCAGTCACCCATTAACATTTT-TCGTTACAAGTCTAACGAGACAGGTGATGCAGCTGGTA
66 ACAAATCAGTCACCCATTAACATTTTCT-GTTACAAGCCTAACGAGACAGGTGACGCAGCCAATA
* * **
106324739 AATTAGCTAATGTGGTTAATTAACTTGCCACTTAGACGAGGCAAA
130 AACTAGCTAATGTAGCCAATTAACTTGCCACTTAGACGAGGCAAA
106324784 GTT
1 GTT
106324787 GAGTGACTAT
Statistics
Matches: 152, Mismatches: 23, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
173 16 0.11
174 115 0.76
175 21 0.14
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (174 bp):
GTTTCAATTCAATCACTCAACTTTTAAAAAAATAACAAAACAGTCACTAACATTATCAAAAAATG
ACAAATCAGTCACCCATTAACATTTTCTGTTACAAGCCTAACGAGACAGGTGACGCAGCCAATAA
ACTAGCTAATGTAGCCAATTAACTTGCCACTTAGACGAGGCAAA
Found at i:106324857 original size:29 final size:29
Alignment explanation
Indices: 106324812--106324879 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 29
106324802 TGTCCTTCCT
*
106324812 TTTTTA-TTTTTTCATAAATGGCCCAATA
1 TTTTTACTTTTTTCATAAATGACCCAATA
106324840 TTTTTACTTTTTGT-ATAAATGACCCAATA
1 TTTTTACTTTTT-TCATAAATGACCCAATA
106324869 TGTTTATACTT
1 T-TTT-TACTT
106324880 CTTCTTCTCC
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
28 6 0.17
29 20 0.57
30 4 0.11
31 5 0.14
ACGTcount: A:0.28, C:0.13, G:0.07, T:0.51
Consensus pattern (29 bp):
TTTTTACTTTTTTCATAAATGACCCAATA
Found at i:106325721 original size:41 final size:41
Alignment explanation
Indices: 106325676--106325757 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
106325666 CCTGAACAAG
106325676 AAGAATTCATTCAAGGGTTTTATTTGTTCTTCTTTTTGGGT
1 AAGAATTCATTCAAGGGTTTTATTTGTTCTTCTTTTTGGGT
106325717 AAGAATTCATTCAAGGGTTTTATTTGTTCTTCTTTTTGGGT
1 AAGAATTCATTCAAGGGTTTTATTTGTTCTTCTTTTTGGGT
106325758 GTCTTATTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.20, C:0.10, G:0.20, T:0.51
Consensus pattern (41 bp):
AAGAATTCATTCAAGGGTTTTATTTGTTCTTCTTTTTGGGT
Found at i:106327372 original size:67 final size:67
Alignment explanation
Indices: 106327264--106327402 Score: 251
Period size: 67 Copynumber: 2.1 Consensus size: 67
106327254 ACTAATTATG
*
106327264 AAGAAAGCAACAGAGAATGAATTAAGAATATAATCGAATAAACCAATGAGATAGACAATACCCAG
1 AAGAAAGCAACAGAGAATGAATTAAAAATATAATCGAATAAACCAATGAGATAGACAATACCCAG
106327329 GA
66 GA
* *
106327331 AAGAACGCAACAGAGAATGAATTAAAAATATAATCGAATAAACCAATGAGATAGACAATACCTAG
1 AAGAAAGCAACAGAGAATGAATTAAAAATATAATCGAATAAACCAATGAGATAGACAATACCCAG
106327396 GA
66 GA
106327398 AAGAA
1 AAGAA
106327403 TCCACCTAGA
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
67 69 1.00
ACGTcount: A:0.55, C:0.13, G:0.17, T:0.15
Consensus pattern (67 bp):
AAGAAAGCAACAGAGAATGAATTAAAAATATAATCGAATAAACCAATGAGATAGACAATACCCAG
GA
Found at i:106328169 original size:30 final size:30
Alignment explanation
Indices: 106328135--106328192 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
106328125 CACGGGCTGG
* *
106328135 CACATGGGCAAGTGCCCAGCCCGTGTGGCT
1 CACATGGGCAAGTGCACAGCCCATGTGGCT
**
106328165 CACATGGGCGTGTGCACAGCCCATGTGG
1 CACATGGGCAAGTGCACAGCCCATGTGG
106328193 AAGTGCCCAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.17, C:0.31, G:0.34, T:0.17
Consensus pattern (30 bp):
CACATGGGCAAGTGCACAGCCCATGTGGCT
Found at i:106330069 original size:7 final size:6
Alignment explanation
Indices: 106330024--106330084 Score: 70
Period size: 6 Copynumber: 10.3 Consensus size: 6
106330014 GAAGTTTAAG
* * * * *
106330024 AAAATA ACAATC AACATA AAAATA GAAATA AAATTA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
106330072 AAAAT- AAAATA AA
1 AAAATA AAAATA AA
106330085 TGGACTCAAT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
5 5 0.11
6 39 0.89
ACGTcount: A:0.75, C:0.05, G:0.02, T:0.18
Consensus pattern (6 bp):
AAAATA
Found at i:106333431 original size:16 final size:16
Alignment explanation
Indices: 106333407--106333437 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
106333397 TATGTACCGA
*
106333407 AAATTTAAATAAATAT
1 AAATATAAATAAATAT
106333423 AAATATAAATAAATA
1 AAATATAAATAAATA
106333438 GATAACAATA
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:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AAATATAAATAAATAT
Found at i:106335115 original size:46 final size:46
Alignment explanation
Indices: 106335065--106335258 Score: 150
Period size: 46 Copynumber: 4.3 Consensus size: 46
106335055 ACCTGCTTCG
106335065 CTGCCAAATACAGGAAGGTAAGATCTGCAATCTTCAATCTATTCCA
1 CTGCCAAATACAGGAAGGTAAGATCTGCAATCTTCAATCTATTCCA
* * * ** * *
106335111 CTGCCAAATACAGTG-AGATAGAGTTAT-C-GGCTTCAATGTACTCCA
1 CTGCCAAATACAG-GAAGGTA-AGATCTGCAATCTTCAATCTATTCCA
* * * * * ** * *
106335156 CTG--TAGT-CAGGGAGGTAAAATCTGCCATCTTTGATCTGCTT-CG
1 CTGCCAAATACAGGAAGGTAAGATCTGCAATCTTCAATCT-ATTCCA
* *
106335199 CTGCCAAATACTGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
1 CTGCCAAATACAGGAAGGTAAGATCTGCAATCTTCAATCTATTCCA
106335245 CTGCCAAATACAGG
1 CTGCCAAATACAGG
106335259 GAGATAGAGT
Statistics
Matches: 105, Mismatches: 33, Indels: 20
0.66 0.21 0.13
Matches are distributed among these distances:
41 4 0.04
42 8 0.08
43 12 0.11
44 1 0.01
45 20 0.19
46 55 0.52
47 5 0.05
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (46 bp):
CTGCCAAATACAGGAAGGTAAGATCTGCAATCTTCAATCTATTCCA
Found at i:106335195 original size:134 final size:134
Alignment explanation
Indices: 106334987--106335328 Score: 533
Period size: 134 Copynumber: 2.5 Consensus size: 134
106334977 CACTGTTGCC
** * * * * *
106334987 CAGGGAGATAGAACTA-CTGGCTTTAATGTACTCCGCCGTAATCAGGGAGGTAAAATCCGCCATC
1 CAGGGAGATAGAGTTATC-GGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATC
* *
106335051 TTCGACCTGCTTCGCTGCCAAATACAGGAAGGTAAGATCTGCAATCTTCAATCTATTCCACTGCC
65 TTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCC
106335116 AAATA
130 AAATA
*
106335121 CAGTGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCT
1 CAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCT
* *
106335186 TTGATCTGCTTCGCTGCCAAATACTGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCA
66 TCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCA
106335251 AATA
131 AATA
*
106335255 CAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCACATGGAGGTAAAATCTGCCAT
1 CAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGT--CAGGGAGGTAAAATCTGCCAT
106335320 CTTCGATCT
64 CTTCGATCT
106335329 TCAATCTATT
Statistics
Matches: 190, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
134 161 0.85
135 1 0.01
136 28 0.15
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.27
Consensus pattern (134 bp):
CAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCT
TCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCA
AATA
Found at i:106335290 original size:45 final size:45
Alignment explanation
Indices: 106335230--106335389 Score: 126
Period size: 45 Copynumber: 3.4 Consensus size: 45
106335220 GATCTGCAAT
*
106335230 CTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
* * * * * * * *
106335275 CTTCAATGTACTCCACTG--TAGTCACATGGAGGTAAAATCTGCCATCTTCGAT
1 CTTCAATCTACTCCACTGCCAAAT-ACAGGGAGATAGAGT-T---A---TCG-G
*
106335327 CTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
*
106335372 CTTCAATGTACTCCACTG
1 CTTCAATCTACTCCACTG
106335390 TAGTCAGGGA
Statistics
Matches: 84, Mismatches: 20, Indels: 22
0.67 0.16 0.17
Matches are distributed among these distances:
43 2 0.02
44 11 0.13
45 33 0.39
46 3 0.04
48 1 0.01
49 1 0.01
51 3 0.04
52 17 0.20
53 11 0.13
54 2 0.02
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (45 bp):
CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
Found at i:106335342 original size:97 final size:95
Alignment explanation
Indices: 106335228--106335423 Score: 356
Period size: 97 Copynumber: 2.0 Consensus size: 95
106335218 AAGATCTGCA
106335228 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
*
106335293 TAGTCACATGGAGGTAAAATCTGCCATCTTCG
66 TAGT--CAGGGAGGTAAAATCTGCCATCTTCG
106335325 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
*
106335390 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
66 TAGTCAGGGAGGTAAAATCTGCCATCTTCG
106335420 ATCT
1 ATCT
106335424 GCTTTGCTGC
Statistics
Matches: 97, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
95 28 0.29
97 69 0.71
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.30
Consensus pattern (95 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
TAGTCAGGGAGGTAAAATCTGCCATCTTCG
Found at i:106335679 original size:132 final size:132
Alignment explanation
Indices: 106335442--106336210 Score: 1421
Period size: 132 Copynumber: 5.8 Consensus size: 132
106335432 GCCAAATACA
* * * * *
106335442 GGAAGGCAAGATCTGCATCTTGGATCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTT
1 GGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTT
* *
106335507 CGATCTACTTCACGCTAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATA
66 CGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATA
106335572 TG
131 TG
106335574 GGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTT
1 GGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTT
106335639 CGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATA
66 CGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATA
106335704 TG
131 TG
106335706 GGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTT
1 GGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTT
*
106335771 CGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCTATCTACTTCGCCACCAATA
66 CGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATA
106335836 TG
131 TG
* *
106335838 GGAAGACAAGATCTGCATCTTTGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACTTT
1 GGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTT
*
106335903 CGATCTACTTCACGCCAATACATAAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATA
66 CGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATA
106335968 TG
131 TG
106335970 GGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTT
1 GGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTT
106336035 CGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATA
66 CGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATA
106336100 TG
131 TG
* *
106336102 GGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATATGCTACTTT
1 GGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTT
106336167 CGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTT
66 CGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTT
106336211 TTATGACTTC
Statistics
Matches: 620, Mismatches: 17, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
132 620 1.00
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (132 bp):
GGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTT
CGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATA
TG
Found at i:106337248 original size:17 final size:18
Alignment explanation
Indices: 106337226--106337259 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
106337216 GGCCTCTCCT
106337226 TTTTCTTTTTC-TTTTTC
1 TTTTCTTTTTCATTTTTC
106337243 TTTTCTTTTTCATTTTT
1 TTTTCTTTTTCATTTTT
106337260 TCATTTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (18 bp):
TTTTCTTTTTCATTTTTC
Found at i:106337278 original size:6 final size:6
Alignment explanation
Indices: 106337224--106337272 Score: 64
Period size: 6 Copynumber: 7.8 Consensus size: 6
106337214 TTGGCCTCTC
106337224 CTTTTT CTTTTT CTTTTT C-TTTT CTTTTT CATTTTTT CATTTTT CTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT C--TTTTT C-TTTTT CTTTT
106337273 CGTTTTTTTC
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
5 5 0.13
6 22 0.56
7 6 0.15
8 6 0.15
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.80
Consensus pattern (6 bp):
CTTTTT
Found at i:106337279 original size:12 final size:12
Alignment explanation
Indices: 106337224--106337272 Score: 64
Period size: 11 Copynumber: 3.9 Consensus size: 12
106337214 TTGGCCTCTC
106337224 CTTTTTCTTTTT
1 CTTTTTCTTTTT
106337236 CTTTTTC-TTTT
1 CTTTTTCTTTTT
106337247 CTTTTTCATTTTTT
1 CTTTTTC--TTTTT
106337261 CATTTTTCTTTT
1 C-TTTTTCTTTT
106337273 CGTTTTTTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
11 11 0.33
12 7 0.21
13 4 0.12
14 5 0.15
15 6 0.18
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.80
Consensus pattern (12 bp):
CTTTTTCTTTTT
Found at i:106341493 original size:16 final size:16
Alignment explanation
Indices: 106341469--106341499 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
106341459 TATGTACCGA
*
106341469 AAATTTAAATAAATAT
1 AAATATAAATAAATAT
106341485 AAATATAAATAAATA
1 AAATATAAATAAATA
106341500 GATAACAATA
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:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AAATATAAATAAATAT
Found at i:106344182 original size:23 final size:23
Alignment explanation
Indices: 106344156--106344201 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
106344146 ATAAATAATT
106344156 TAAAAATT-ATAAAAAATTAAAAA
1 TAAAAATTCAT-AAAAATTAAAAA
*
106344179 TAAAAATTCATAAAACTTAAAAA
1 TAAAAATTCATAAAAATTAAAAA
106344202 AATAATAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 19 0.90
24 2 0.10
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (23 bp):
TAAAAATTCATAAAAATTAAAAA
Found at i:106345909 original size:54 final size:54
Alignment explanation
Indices: 106345845--106345991 Score: 154
Period size: 59 Copynumber: 2.6 Consensus size: 54
106345835 CCTTATTTGC
106345845 TAACCACAGGTTATCTAACAAAAAGGTTCTTGTTCATAAAGGGAATGCCATAAT
1 TAACCACAGGTTATCTAACAAAAAGGTTCTTGTTCATAAAGGGAATGCCATAAT
** *** * *
106345899 TAACCACAGGTGATTAT-TTGCTTTAA-TTTCTTCAATGTTCATGAAGGGAATGCCATAAT
1 TAACCACA-G-G-TTATCTAACAAAAAGGTTC-T---TGTTCATAAAGGGAATGCCATAAT
106345958 TAACCACAGGTTATCTAACAAAAAGGTTCTTGTT
1 TAACCACAGGTTATCTAACAAAAAGGTTCTTGTT
106345992 GTTCTTGATG
Statistics
Matches: 71, Mismatches: 13, Indels: 18
0.70 0.13 0.18
Matches are distributed among these distances:
54 12 0.17
55 4 0.06
56 10 0.14
57 10 0.14
58 4 0.06
59 31 0.44
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (54 bp):
TAACCACAGGTTATCTAACAAAAAGGTTCTTGTTCATAAAGGGAATGCCATAAT
Found at i:106347631 original size:11 final size:9
Alignment explanation
Indices: 106347576--106347621 Score: 58
Period size: 9 Copynumber: 5.0 Consensus size: 9
106347566 CCAATTTTAG
106347576 AAATTTTTT
1 AAATTTTTT
106347585 AAA-TTTTT
1 AAATTTTTT
106347593 AAATTTTTT
1 AAATTTTTT
106347602 ATATATTTTTT
1 A-A-ATTTTTT
*
106347613 AGATTTTTT
1 AAATTTTTT
106347622 TAAAAATTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
8 8 0.24
9 16 0.48
10 1 0.03
11 8 0.24
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (9 bp):
AAATTTTTT
Found at i:106349401 original size:72 final size:72
Alignment explanation
Indices: 106349284--106349467 Score: 350
Period size: 72 Copynumber: 2.6 Consensus size: 72
106349274 ACAACTTGAC
*
106349284 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
106349349 ACTAACA
66 ACTAACA
*
106349356 AACTTAGTTGGAATACAACTAAGTTACATCATTATATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
106349421 ACTAACA
66 ACTAACA
106349428 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
106349468 AATAATAATA
Statistics
Matches: 109, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 109 1.00
ACGTcount: A:0.42, C:0.23, G:0.07, T:0.28
Consensus pattern (72 bp):
AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
ACTAACA
Found at i:106349476 original size:3 final size:3
Alignment explanation
Indices: 106349468--106349514 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
106349458 ATTACATCCA
106349468 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
106349515 AACATGTGAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:106353850 original size:72 final size:72
Alignment explanation
Indices: 106353733--106353916 Score: 350
Period size: 72 Copynumber: 2.6 Consensus size: 72
106353723 ACAACTTGAC
*
106353733 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
106353798 ACTAACA
66 ACTAACA
*
106353805 AACTTAGTTGGAATACAACTAAGTTACATCATTATATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
106353870 ACTAACA
66 ACTAACA
106353877 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
106353917 AATAATAATA
Statistics
Matches: 109, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 109 1.00
ACGTcount: A:0.42, C:0.23, G:0.07, T:0.28
Consensus pattern (72 bp):
AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
ACTAACA
Found at i:106353925 original size:3 final size:3
Alignment explanation
Indices: 106353917--106353945 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
106353907 ATTACATCCA
106353917 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
106353946 AACATGTGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:106359075 original size:16 final size:19
Alignment explanation
Indices: 106359037--106359076 Score: 50
Period size: 16 Copynumber: 2.3 Consensus size: 19
106359027 ATCCAATATT
*
106359037 TATTTACATATTTAGTTTT
1 TATTTACATATTTAGTTTA
106359056 TATTTA-AT-TTTA-TTTA
1 TATTTACATATTTAGTTTA
106359072 TATTT
1 TATTT
106359077 TTATCTTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 8 0.40
17 4 0.20
18 2 0.10
19 6 0.30
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.68
Consensus pattern (19 bp):
TATTTACATATTTAGTTTA
Found at i:106361434 original size:54 final size:54
Alignment explanation
Indices: 106361339--106361441 Score: 152
Period size: 54 Copynumber: 1.9 Consensus size: 54
106361329 ACTCTCTGAA
* *
106361339 ATATTTTCAAACCATGGGATGGATGCCTCTAATCCATCAGGAACCTCAATGGTC
1 ATATTTTCAAACCATGGGATGGATGCATCTAATCCAGCAGGAACCTCAATGGTC
* ** *
106361393 ATATTTTCAAACCATGGGATGGATGTATCTTCTCCAGCAGGAAGCTCAA
1 ATATTTTCAAACCATGGGATGGATGCATCTAATCCAGCAGGAACCTCAA
106361442 CACCATCAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 43 1.00
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.28
Consensus pattern (54 bp):
ATATTTTCAAACCATGGGATGGATGCATCTAATCCAGCAGGAACCTCAATGGTC
Found at i:106373232 original size:4 final size:4
Alignment explanation
Indices: 106373223--106373257 Score: 56
Period size: 4 Copynumber: 9.2 Consensus size: 4
106373213 TTTTATTATT
106373223 TTAA TTAA TT-- TTAA TTAA TTAA TTAA TTAA TTAA T
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA T
106373258 ATTTTGAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
4 27 0.93
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (4 bp):
TTAA
Found at i:106373233 original size:10 final size:10
Alignment explanation
Indices: 106373220--106373254 Score: 52
Period size: 10 Copynumber: 3.3 Consensus size: 10
106373210 TTTTTTTATT
106373220 ATTTTAATTA
1 ATTTTAATTA
106373230 ATTTTAATTA
1 ATTTTAATTA
106373240 ATTAATTAATTA
1 ATT--TTAATTA
106373252 ATT
1 ATT
106373255 AATATTTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 13 0.57
12 10 0.43
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (10 bp):
ATTTTAATTA
Found at i:106387047 original size:72 final size:72
Alignment explanation
Indices: 106386930--106387119 Score: 326
Period size: 72 Copynumber: 2.6 Consensus size: 72
106386920 TATATATTAA
106386930 TGCTTTTTTATAGGTTTCAGCTCAATAATGTCTTTTGATCTGAGTTTGATCTGAGTTCGGAAAAC
1 TGCTTTTTTATAGGTTTCAGCTCAATAATGTCTTTTGATCTGAGTTTGATCTGAGTTCGGAAAAC
106386995 TCTTTAC
66 TCTTTAC
* *
106387002 TGCTTTTTTATAAGTTTCAGCTCAATAATGTCTTTTGATCTGAGTTTGATCTGAGTTTGGAAAAC
1 TGCTTTTTTATAGGTTTCAGCTCAATAATGTCTTTTGATCTGAGTTTGATCTGAGTTCGGAAAAC
*
106387067 TCTTTAG
66 TCTTTAC
* * *
106387074 TGTTTTTTTATAGGTTTCAGCTTAATAATTTCTTTTGATCTGAGTT
1 TGCTTTTTTATAGGTTTCAGCTCAATAATGTCTTTTGATCTGAGTT
106387120 CTGTGATAGA
Statistics
Matches: 111, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 111 1.00
ACGTcount: A:0.22, C:0.13, G:0.17, T:0.48
Consensus pattern (72 bp):
TGCTTTTTTATAGGTTTCAGCTCAATAATGTCTTTTGATCTGAGTTTGATCTGAGTTCGGAAAAC
TCTTTAC
Found at i:106387051 original size:11 final size:11
Alignment explanation
Indices: 106387035--106387060 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
106387025 AATAATGTCT
106387035 TTTGATCTGAG
1 TTTGATCTGAG
106387046 TTTGATCTGAG
1 TTTGATCTGAG
106387057 TTTG
1 TTTG
106387061 GAAAACTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.08, G:0.27, T:0.50
Consensus pattern (11 bp):
TTTGATCTGAG
Found at i:106387368 original size:18 final size:19
Alignment explanation
Indices: 106387345--106387380 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
106387335 ATTGTTTTCA
106387345 TACCTT-TAGGTATATCAC
1 TACCTTGTAGGTATATCAC
106387363 TACCTTGTAGGTATATCA
1 TACCTTGTAGGTATATCA
106387381 TTAATATCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.39
Consensus pattern (19 bp):
TACCTTGTAGGTATATCAC
Found at i:106388444 original size:18 final size:18
Alignment explanation
Indices: 106388421--106388456 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
106388411 CCTATTGTAT
*
106388421 TACTGATTTATGCTTACA
1 TACTGATTCATGCTTACA
106388439 TACTGATTCATGCTTACA
1 TACTGATTCATGCTTACA
106388457 CTTGTGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.28, C:0.19, G:0.11, T:0.42
Consensus pattern (18 bp):
TACTGATTCATGCTTACA
Found at i:106389669 original size:32 final size:32
Alignment explanation
Indices: 106389633--106389785 Score: 225
Period size: 32 Copynumber: 4.8 Consensus size: 32
106389623 ACTATACTAG
106389633 TTTTTTATATGTAAAACTAATGTATGATCTAC
1 TTTTTTATATGTAAAACTAATGTATGATCTAC
* * *
106389665 TTTTTCATTTGCAAAACTAATGTATGATCTAC
1 TTTTTTATATGTAAAACTAATGTATGATCTAC
* * *
106389697 TTTTTTATATGTGAACCTAATGTATTATCTAC
1 TTTTTTATATGTAAAACTAATGTATGATCTAC
*
106389729 TTTTTTATATGCAAAACTAATGTATGATCTAC
1 TTTTTTATATGTAAAACTAATGTATGATCTAC
* *
106389761 TTTTTTATACGTAAACCTAATGTAT
1 TTTTTTATATGTAAAACTAATGTAT
106389786 CATATTTTTT
Statistics
Matches: 105, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 105 1.00
ACGTcount: A:0.32, C:0.12, G:0.09, T:0.46
Consensus pattern (32 bp):
TTTTTTATATGTAAAACTAATGTATGATCTAC
Found at i:106389742 original size:64 final size:64
Alignment explanation
Indices: 106389633--106389785 Score: 252
Period size: 64 Copynumber: 2.4 Consensus size: 64
106389623 ACTATACTAG
* *
106389633 TTTTTTATATGTAAAACTAATGTATGATCTACTTTTTCATTTGCAAAACTAATGTATGATCTAC
1 TTTTTTATATGTAAACCTAATGTATGATCTACTTTTTCATATGCAAAACTAATGTATGATCTAC
* * *
106389697 TTTTTTATATGTGAACCTAATGTATTATCTACTTTTTTATATGCAAAACTAATGTATGATCTAC
1 TTTTTTATATGTAAACCTAATGTATGATCTACTTTTTCATATGCAAAACTAATGTATGATCTAC
*
106389761 TTTTTTATACGTAAACCTAATGTAT
1 TTTTTTATATGTAAACCTAATGTAT
106389786 CATATTTTTT
Statistics
Matches: 82, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 82 1.00
ACGTcount: A:0.32, C:0.12, G:0.09, T:0.46
Consensus pattern (64 bp):
TTTTTTATATGTAAACCTAATGTATGATCTACTTTTTCATATGCAAAACTAATGTATGATCTAC
Found at i:106393630 original size:30 final size:30
Alignment explanation
Indices: 106393594--106393738 Score: 168
Period size: 30 Copynumber: 4.8 Consensus size: 30
106393584 ACTTTTCTCA
106393594 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
* *
106393624 ACTAGCCACTCTTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
* *
106393654 ACTAGCCACACCTTTTCCACCACTAAATCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
* ** *
106393684 ACTAGCCACA-CTTGCTCCATTACCTACTCC
1 ACTAGCCACACCTT-TTCCACCACCAACTCC
* *
106393714 ACTAACCACA-CTTGCTCCACCACCA
1 ACTAGCCACACCTT-TTCCACCACCA
106393739 CTTGTACCTA
Statistics
Matches: 98, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
29 3 0.03
30 95 0.97
ACGTcount: A:0.27, C:0.46, G:0.04, T:0.23
Consensus pattern (30 bp):
ACTAGCCACACCTTTTCCACCACCAACTCC
Found at i:106394274 original size:24 final size:23
Alignment explanation
Indices: 106394226--106394286 Score: 61
Period size: 24 Copynumber: 2.6 Consensus size: 23
106394216 CCTTTTTTGT
*
106394226 TATTATTATATTTCTTAATATTA
1 TATTATTATATTTCTTAATAATA
*
106394249 TATTATATATATATTCTT-TTAATA
1 TATTAT-TATAT-TTCTTAATAATA
*
106394273 TATTAGGTATATTT
1 TATTA-TTATATTT
106394287 TAAATTCTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
23 8 0.25
24 19 0.59
25 5 0.16
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.59
Consensus pattern (23 bp):
TATTATTATATTTCTTAATAATA
Found at i:106394331 original size:25 final size:26
Alignment explanation
Indices: 106394303--106394443 Score: 78
Period size: 25 Copynumber: 5.5 Consensus size: 26
106394293 CTATATTACG
*
106394303 TATATATATT-ATACTATTTTATGTA
1 TATATATATTAATACTATATTATGTA
* * *
106394328 TATATCT-TTAATATTATATTATTTA
1 TATATATATTAATACTATATTATGTA
** * *
106394353 TATATATATTTTTTAC-ATGTTATCTTA
1 TATATATA-TTAATACTATATTAT-GTA
* *
106394380 TGTATATATCTTA-ACTATATTATGTA
1 TATATATAT-TAATACTATATTATGTA
* * *
106394406 TGTAT-TTTTAACACTATATTATGTA
1 TATATATATTAATACTATATTATGTA
* *
106394431 CATAT-TTTTAATA
1 TATATATATTAATA
106394444 TTATCACGTA
Statistics
Matches: 91, Mismatches: 18, Indels: 14
0.74 0.15 0.11
Matches are distributed among these distances:
24 4 0.04
25 49 0.54
26 16 0.18
27 22 0.24
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.55
Consensus pattern (26 bp):
TATATATATTAATACTATATTATGTA
Found at i:106394402 original size:27 final size:26
Alignment explanation
Indices: 106394320--106394410 Score: 76
Period size: 26 Copynumber: 3.3 Consensus size: 26
106394310 ATTATACTAT
*
106394320 TTTATGTATATATCTTTAATATTATATTA
1 TTTATGTATATATC-TT-A-ACTATATTA
* * * *
106394349 TTTATATATATATTTTTTAC-ATGTTA
1 TTTATGTATATA-TCTTAACTATATTA
106394375 TCTTATGTATATATCTTAACTATATTA
1 T-TTATGTATATATCTTAACTATATTA
*
106394402 TGTATGTAT
1 TTTATGTAT
106394411 TTTTAACACT
Statistics
Matches: 49, Mismatches: 10, Indels: 9
0.72 0.15 0.13
Matches are distributed among these distances:
26 18 0.37
27 17 0.35
29 13 0.27
30 1 0.02
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.57
Consensus pattern (26 bp):
TTTATGTATATATCTTAACTATATTA
Found at i:106394624 original size:16 final size:15
Alignment explanation
Indices: 106394600--106394647 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
106394590 TAATTATTAT
*
106394600 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
106394616 TATTTTAATATTTTA
1 TATTTTAATATTTTA
106394631 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
106394647 T
1 T
106394648 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:106394635 original size:7 final size:8
Alignment explanation
Indices: 106394600--106394651 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
106394590 TAATTATTAT
*
106394600 TATTCTAA
1 TATTTTAA
*
106394608 TATTTTGA
1 TATTTTAA
106394616 TATTTTAA
1 TATTTTAA
106394624 TATTTT-A
1 TATTTTAA
106394631 TATTTTATA
1 TATTTTA-A
*
106394640 TATTTTAT
1 TATTTTAA
106394648 TATT
1 TATT
106394652 CACATCATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:106404723 original size:73 final size:73
Alignment explanation
Indices: 106404542--106405035 Score: 458
Period size: 73 Copynumber: 6.5 Consensus size: 73
106404532 CTTTTCAAGG
* * * * * * * *
106404542 AAAATCAACTCATATTGCGGGAGATGAGTTGAGCCTCAAGACACGTTGAGATACTTTTAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
*
106404607 GTTTTTC-
66 GTTTGTCA
*
106404614 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
106404679 GTTTGTCA
66 GTTTGTCA
* *
106404687 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATCTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
*
106404752 ATTTGTCA
66 GTTTGTCA
* * **
106404760 AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTC-GGCTCACATGCTGAGGTCTTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTCAATT
*
106404824 TCTGTTCTTCAATTTCTGTTCGT
63 TCTG---------TT-TG-TC-A
** * * * * * *
106404847 AAAAAAAAATCA-ACT-C-ATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTT
1 AAAATCAACTCATATTGCGAGA--G-GTGAGTTGAG-----CCTCAGGACACGCTGAGGTA-ATT
* *
106404909 TAAATTTCTGTTTTTCA
57 TCAATTTCTGTTTGTCA
* *
106404926 AAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAGTTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
106404991 GTTTGTCA
66 GTTTGTCA
*
106404999 AAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
106405036 GGCTCACATA
Statistics
Matches: 345, Mismatches: 48, Indels: 57
0.77 0.11 0.13
Matches are distributed among these distances:
72 63 0.18
73 156 0.45
74 20 0.06
75 21 0.06
79 17 0.05
80 5 0.01
81 2 0.01
82 4 0.01
84 4 0.01
85 3 0.01
86 5 0.01
87 16 0.05
90 11 0.03
91 12 0.03
92 4 0.01
93 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (73 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
GTTTGTCA
Found at i:106404836 original size:14 final size:14
Alignment explanation
Indices: 106404817--106404844 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
106404807 CTGAGGTCTT
106404817 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
106404831 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
106404845 GTAAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.07, T:0.57
Consensus pattern (14 bp):
TTCAATTTCTGTTC
Found at i:106404958 original size:74 final size:73
Alignment explanation
Indices: 106404851--106405035 Score: 307
Period size: 74 Copynumber: 2.5 Consensus size: 73
106404841 GTTCGTAAAA
*
106404851 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA-ATTTAAATTT
*
106404916 CTGTTTTTC
65 CTGTTTGTC
* * *
106404925 AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAGTTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTAAATTTC
106404990 TGTTTGTC
66 TGTTTGTC
*
106404998 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
106405036 GGCTCACATA
Statistics
Matches: 104, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
73 51 0.49
74 53 0.51
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.31
Consensus pattern (73 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTAAATTTC
TGTTTGTC
Found at i:106405084 original size:238 final size:238
Alignment explanation
Indices: 106404614--106405268 Score: 1098
Period size: 238 Copynumber: 2.8 Consensus size: 238
106404604 TTTGTTTTTC
* * *
106404614 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA-ATTTCAATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTC
* * *
106404678 TGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATC
66 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
* * *
106404743 TCAATTTCTATTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGGCTCACATGC
131 TCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATAC
106404808 TGAGGTCTTTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAAA
196 TGAGGTCTTTTCAATTTCTGTTCTTCAATTTCTGTTCGT-AAAA
106404852 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTC
*
106404917 TGTTTTTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
66 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
* *
106404982 TCAGTTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATAC
131 TCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATAC
*
106405047 TGAGGTCTTTT-AATTTCTGTTCTTCAATTTTTGTTCGTAAAA
196 TGAGGTCTTTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAA
* * *
106405089 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGATATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTC
* *
106405154 TGTTTTTCAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGATGAGGTAAT
66 TGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAAT
* *
106405219 TTCAATTTCTGTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGA
130 TTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
106405269 ACCTTTTAAT
Statistics
Matches: 392, Mismatches: 23, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
237 74 0.19
238 177 0.45
239 141 0.36
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (238 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTC
TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
TCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATAC
TGAGGTCTTTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAA
Found at i:106405152 original size:90 final size:88
Alignment explanation
Indices: 106404998--106405163 Score: 208
Period size: 90 Copynumber: 1.8 Consensus size: 88
106404988 TCTGTTTGTC
* * * *
106404998 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATACTGAGGTCTTTTAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--CACACACTGAGATCTTTTAATTT
106405063 CTGTTCTTCAATTTTTGTTCGTAAA
64 CTGTTCTTCAATTTTTGTTCGTAAA
* *
106405088 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG-ACACGCTGAGATATTTTTAAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGCACACACTGAGAT-CTTTT-AATT
* *
106405152 TTTGTTTTTCAA
63 TCTGTTCTTCAA
106405164 AAAATCAACT
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
88 9 0.14
89 4 0.06
90 51 0.78
91 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.36
Consensus pattern (88 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACACACTGAGATCTTTTAATTTCT
GTTCTTCAATTTTTGTTCGTAAA
Found at i:106405268 original size:73 final size:75
Alignment explanation
Indices: 106405087--106405268 Score: 260
Period size: 75 Copynumber: 2.5 Consensus size: 75
106405077 TTGTTCGTAA
* *
106405087 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGATATTTTTAAATT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGATGAGATATATTTAAATT
* *
106405152 TTTGTTTTTC
66 TCTGTTTGTC
* * * *
106405162 AAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGATGAGGTA-ATTTCAATT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGATGAGATATATTTAAATT
106405226 TCTGTTTGTC
66 TCTGTTTGTC
* *
106405236 -AAGAATCAACTCATATTGCGAGAGGTGGGTTGA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
106405269 ACCTTTTAAT
Statistics
Matches: 96, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
73 30 0.31
74 15 0.16
75 51 0.53
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (75 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGATGAGATATATTTAAATT
TCTGTTTGTC
Found at i:106405429 original size:54 final size:55
Alignment explanation
Indices: 106405346--106405453 Score: 155
Period size: 54 Copynumber: 2.0 Consensus size: 55
106405336 TGATGTATTC
* * * *
106405346 TTAATTTTTGTTGTTTCAAAAATTAACTCATGTTGCGAGAAGTGAGTTAAGCCTT
1 TTAATTTCTGTTGTGTCAAAAATCAACTCATCTTGCGAGAAGTGAGTTAAGCCTT
* *
106405401 TTAATTTCTGTT-TGTCAAAAATCAACTCATCTTGCGAGAGGTGAGTTGAGCCT
1 TTAATTTCTGTTGTGTCAAAAATCAACTCATCTTGCGAGAAGTGAGTTAAGCCT
106405454 CGGCTCACAT
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
54 36 0.77
55 11 0.23
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (55 bp):
TTAATTTCTGTTGTGTCAAAAATCAACTCATCTTGCGAGAAGTGAGTTAAGCCTT
Found at i:106405448 original size:128 final size:127
Alignment explanation
Indices: 106405143--106405454 Score: 389
Period size: 126 Copynumber: 2.4 Consensus size: 127
106405133 GCTGAGATAT
* *
106405143 TTTTAAATTTTTGTTTTTCAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACAC
1 TTTT-AATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
* * *
106405208 GATGAGGTAATTTCAATTTCTGTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACC
64 GATGAGGTAATTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAACC
* * *
106405272 TTTTAATTTCTACTTTTTC--AAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACG
1 TTTTAATTTCT-GTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
* * * * * * *
106405335 CTGATGT-ATTCTTAATTTTTGTTGTTTCAAAAATTAACTCATGTTGCGAGAAGTGAGTT-AAGC
65 ATGAGGTAATT-TCAATTTCTGTT-TGTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAA-C
106405398 C
127 C
* *
106405399 TTTTAATTTCTGTTTGTCAAAAATCAACTCATCTTGCGAGAGGTGAGTTGAGCCTC
1 TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
106405455 GGCTCACATG
Statistics
Matches: 158, Mismatches: 19, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
125 3 0.02
126 63 0.40
127 42 0.27
128 40 0.25
129 10 0.06
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.37
Consensus pattern (127 bp):
TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGA
TGAGGTAATTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAACC
Found at i:106405494 original size:14 final size:14
Alignment explanation
Indices: 106405475--106405501 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
106405465 CTGAGGTCTT
106405475 TTCAATTTCTGTTA
1 TTCAATTTCTGTTA
106405489 TTCAATTTCTGTT
1 TTCAATTTCTGTT
106405502 CGTAAAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.15, G:0.07, T:0.59
Consensus pattern (14 bp):
TTCAATTTCTGTTA
Found at i:106405615 original size:73 final size:72
Alignment explanation
Indices: 106405509--106405731 Score: 295
Period size: 73 Copynumber: 3.0 Consensus size: 72
106405499 GTTCGTAAAA
106405509 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTGAGGTATTTTT-AATTT
106405574 -TGTTTTTC
64 CTGTTTTTC
* * * * *
106405582 AAAAATCAACTCATATTGCGAAAGGAGAGTTGAGCCTCGGGATACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTGAGGTATTTTTAATTTC
*
106405647 TGTTTGTC
65 TGTTTTTC
* * *
106405655 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTTAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG---ACACGCTGAGGTATTTTTAATT
*
106405720 TCTGCTTTTC
63 TCTGTTTTTC
106405730 AA
1 AA
106405732 TTTCTGTTTT
Statistics
Matches: 129, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
72 7 0.05
73 95 0.74
75 27 0.21
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (72 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCTGAGGTATTTTTAATTTCT
GTTTTTC
Found at i:106405742 original size:14 final size:14
Alignment explanation
Indices: 106405711--106405761 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
106405701 TGCTGAGGTC
106405711 TTTTT-AATTTCTG
1 TTTTTCAATTTCTG
*
106405724 CTTTTCAATTTCTG
1 TTTTTCAATTTCTG
* *
106405738 TTTTTTTCAATTTATA
1 --TTTTTCAATTTCTG
106405754 TTTTTCAA
1 TTTTTCAA
106405762 AAATCAACTC
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
13 4 0.13
14 16 0.52
16 11 0.35
ACGTcount: A:0.20, C:0.12, G:0.04, T:0.65
Consensus pattern (14 bp):
TTTTTCAATTTCTG
Found at i:106405757 original size:16 final size:16
Alignment explanation
Indices: 106405725--106405758 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
106405715 TAATTTCTGC
* *
106405725 TTTTCAATTTCTGTTT
1 TTTTCAATTTATATTT
106405741 TTTTCAATTTATATTT
1 TTTTCAATTTATATTT
106405757 TT
1 TT
106405759 CAAAAATCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.09, G:0.03, T:0.71
Consensus pattern (16 bp):
TTTTCAATTTATATTT
Found at i:106405825 original size:105 final size:105
Alignment explanation
Indices: 106405637--106405846 Score: 287
Period size: 105 Copynumber: 2.0 Consensus size: 105
106405627 GCTGAGGTAA
* * *
106405637 TTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACAT
1 TTTCAATTTATATTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACAT
* * * * *
106405702 GCTGAGGTCTTTTTAATTTCTGCTTTTCAATTTCT-GTTTT
66 GCTAAGCTATTTTCAATTTCTG-TTTTCAATGTCTAGTTTT
* * * *
106405742 TTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAGATGTGAGTTGAGCCTTGGCTCACGT
1 TTTCAATTTATATTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACAT
*
106405807 GCTAAGCTATTTTCAATTTCTGTTTTTAATGTCTAGTTTT
66 GCTAAGCTATTTTCAATTTCTGTTTTCAATGTCTAGTTTT
106405847 ACAGAGTCAA
Statistics
Matches: 91, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
104 10 0.11
105 81 0.89
ACGTcount: A:0.23, C:0.16, G:0.17, T:0.44
Consensus pattern (105 bp):
TTTCAATTTATATTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACAT
GCTAAGCTATTTTCAATTTCTGTTTTCAATGTCTAGTTTT
Found at i:106406493 original size:30 final size:30
Alignment explanation
Indices: 106406448--106406608 Score: 252
Period size: 30 Copynumber: 5.4 Consensus size: 30
106406438 ACTTTTCTCA
*
106406448 ACTAG-CACACATTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
106406477 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
*
106406507 ACTAGCCACTCCTTTTTCCACCACCAACTCC
1 ACTAGCCACACC-TTTTCCACCACCAACTCC
* * *
106406538 ACTAGCCACTCTTTTTCCACCACCAACTCT
1 ACTAGCCACACCTTTTCCACCACCAACTCC
*
106406568 ACTAGCCACACCTTTTCCACCACCAAATCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
106406598 ACTAGCCACAC
1 ACTAGCCACAC
106406609 TTGCTCCATT
Statistics
Matches: 122, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
29 5 0.04
30 88 0.72
31 29 0.24
ACGTcount: A:0.27, C:0.47, G:0.04, T:0.22
Consensus pattern (30 bp):
ACTAGCCACACCTTTTCCACCACCAACTCC
Found at i:106406527 original size:61 final size:60
Alignment explanation
Indices: 106406448--106406608 Score: 252
Period size: 61 Copynumber: 2.7 Consensus size: 60
106406438 ACTTTTCTCA
*
106406448 ACTAG-CACACATTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCC
* * * *
106406507 ACTAGCCACTCCTTTTTCCACCACCAACTCCACTAGCCACTCTTTTTCCACCACCAACTCT
1 ACTAGCCACACC-TTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCC
*
106406568 ACTAGCCACACCTTTTCCACCACCAAATCCACTAGCCACAC
1 ACTAGCCACACCTTTTCCACCACCAACTCCACTAGCCACAC
106406609 TTGCTCCATT
Statistics
Matches: 92, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
59 5 0.05
60 31 0.34
61 56 0.61
ACGTcount: A:0.27, C:0.47, G:0.04, T:0.22
Consensus pattern (60 bp):
ACTAGCCACACCTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCC
Found at i:106406629 original size:30 final size:29
Alignment explanation
Indices: 106406448--106406640 Score: 235
Period size: 30 Copynumber: 6.4 Consensus size: 29
106406438 ACTTTTCTCA
106406448 ACTAG-CACACATTTTCCACCACCAACTCC
1 ACTAGCCACAC-TTTTCCACCACCAACTCC
106406477 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACA-CTTTTCCACCACCAACTCC
*
106406507 ACTAGCCACTCCTTTTTCCACCACCAACTCC
1 ACTAGCCAC-AC-TTTTCCACCACCAACTCC
* *
106406538 ACTAGCCACTCTTTTTCCACCACCAACTCT
1 ACTAGCCACAC-TTTTCCACCACCAACTCC
*
106406568 ACTAGCCACACCTTTTCCACCACCAAATCC
1 ACTAGCCACA-CTTTTCCACCACCAACTCC
* ** *
106406598 ACTAGCCACACTTGCTCCATTACCTACTCC
1 ACTAGCCACACTT-TTCCACCACCAACTCC
*
106406628 ACTAACCACACTT
1 ACTAGCCACACTT
106406641 GTACCTACAA
Statistics
Matches: 146, Mismatches: 12, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
29 8 0.05
30 109 0.75
31 29 0.20
ACGTcount: A:0.27, C:0.46, G:0.04, T:0.24
Consensus pattern (29 bp):
ACTAGCCACACTTTTCCACCACCAACTCC
Found at i:106407243 original size:16 final size:16
Alignment explanation
Indices: 106407224--106407266 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 16
106407214 CTATTTTATG
106407224 TATATATCTTTAATAT-
1 TATATAT-TTTAATATA
106407240 TATATTATTTT-ATATA
1 TATA-TATTTTAATATA
106407256 TATATATTTTA
1 TATATATTTTA
106407267 CATGTTATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
15 10 0.42
16 11 0.46
17 3 0.12
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (16 bp):
TATATATTTTAATATA
Found at i:106407247 original size:25 final size:25
Alignment explanation
Indices: 106407131--106407346 Score: 94
Period size: 25 Copynumber: 8.7 Consensus size: 25
106407121 TTGTTATTAT
*
106407131 TATAT-TTCTAATATTATATTATATA
1 TATATCTT-TAATATTATATTATGTA
* *
106407156 TAT-TCTTT--TAATATATTAGGTA
1 TATATCTTTAATATTATATTATGTA
* *
106407178 TAT-T-TTAAAT-TCTATATTACGTA
1 TATATCTTTAATAT-TATATTATGTA
* * *
106407201 TATATATATT-ATACTATTTTATGTA
1 TATATCT-TTAATATTATATTATGTA
*
106407226 TATATCTTTAATATTATATTATTTTATATA
1 TATATCTTTAATA-T-TA-TA--TTATGTA
* * *
106407256 TATATATTTTACATGTTATCTTATGTA
1 TATAT-CTTTA-ATATTATATTATGTA
*
106407283 TATATC-TT-A-ACTATATTATGTA
1 TATATCTTTAATATTATATTATGTA
* * * *
106407305 TGTATTTTTAACACTATATTATGTA
1 TATATCTTTAATATTATATTATGTA
* *
106407330 CATATTTTTAATATTAT
1 TATATCTTTAATATTAT
106407347 CACGTATTTT
Statistics
Matches: 144, Mismatches: 28, Indels: 38
0.69 0.13 0.18
Matches are distributed among these distances:
21 2 0.01
22 29 0.20
23 17 0.12
24 6 0.04
25 54 0.38
26 1 0.01
27 13 0.09
28 1 0.01
29 1 0.01
30 13 0.09
31 5 0.03
32 2 0.01
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.55
Consensus pattern (25 bp):
TATATCTTTAATATTATATTATGTA
Found at i:106407345 original size:20 final size:20
Alignment explanation
Indices: 106407320--106407375 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 20
106407310 TTTTAACACT
106407320 ATATTATGTACATATTTTTA
1 ATATTATGTACATATTTTTA
* * *
106407340 ATATTAT-CACGTATTTTTT
1 ATATTATGTACATATTTTTA
*
106407359 TTATATATGTACATATT
1 ATAT-TATGTACATATT
106407376 GATGTAGTAT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
19 12 0.43
20 10 0.36
21 6 0.21
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.55
Consensus pattern (20 bp):
ATATTATGTACATATTTTTA
Found at i:106407530 original size:17 final size:17
Alignment explanation
Indices: 106407489--106407537 Score: 57
Period size: 16 Copynumber: 3.0 Consensus size: 17
106407479 ATATTAATTA
*
106407489 TTAT-TATTCTAATATT
1 TTATATATTTTAATATT
*
106407505 TT-GATATTTTAATATT
1 TTATATATTTTAATATT
*
106407521 TTATATATTTTATTATT
1 TTATATATTTTAATATT
106407538 CACATCATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
16 15 0.56
17 12 0.44
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (17 bp):
TTATATATTTTAATATT
Found at i:106417348 original size:15 final size:15
Alignment explanation
Indices: 106417328--106417360 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
106417318 TCTACTAAAC
106417328 ATTTCATTTATTTTT
1 ATTTCATTTATTTTT
106417343 ATTTCATTTATTTTT
1 ATTTCATTTATTTTT
106417358 ATT
1 ATT
106417361 GTTAAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (15 bp):
ATTTCATTTATTTTT
Found at i:106418074 original size:23 final size:23
Alignment explanation
Indices: 106418047--106418097 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
106418037 AAACAAATTC
* *
106418047 AAATATTAATATTTTATAGTATA
1 AAATATGAATATTTTATACTATA
106418070 AAATATGAATATTTTATACTATA
1 AAATATGAATATTTTATACTATA
106418093 AAATA
1 AAATA
106418098 AGTATTTGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (23 bp):
AAATATGAATATTTTATACTATA
Found at i:106422314 original size:15 final size:15
Alignment explanation
Indices: 106422291--106422326 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
106422281 ATGTATTTAT
*
106422291 TAGGCAAGTTGAATC
1 TAGGTAAGTTGAATC
106422306 TAGGTAAGTTGAATC
1 TAGGTAAGTTGAATC
*
106422321 GAGGTA
1 TAGGTA
106422327 TACTTATGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.28
Consensus pattern (15 bp):
TAGGTAAGTTGAATC
Found at i:106430462 original size:20 final size:20
Alignment explanation
Indices: 106430419--106430478 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
106430409 ACTCAAGACT
* *
106430419 TATATATTATGATAA-TAATT
1 TATATAATATGATAATTAA-A
106430439 TATATAATATGATAATTAAA
1 TATATAATATGATAATTAAA
* *
106430459 TATATTATATTATAATTAAA
1 TATATAATATGATAATTAAA
106430479 AGTTTGTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 32 0.91
21 3 0.09
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (20 bp):
TATATAATATGATAATTAAA
Found at i:106438862 original size:25 final size:21
Alignment explanation
Indices: 106438668--106438931 Score: 56
Period size: 22 Copynumber: 12.9 Consensus size: 21
106438658 TTGTCTAACA
* *
106438668 TTATTATTATTATTATTCTTT
1 TTATTATTACTATTATTATTT
* * *
106438689 TTTTATATTATTGTTATTATTT
1 TTAT-TATTACTATTATTATTT
* * ** *
106438711 CTATTTATTATTACCATTATTA
1 TTA-TTATTACTATTATTATTT
*
106438733 TTACTATTA-T-TT-TTATTT
1 TTATTATTACTATTATTATTT
* * *
106438751 TTATT-G--CTATTACTATTA
1 TTATTATTACTATTATTATTT
* *
106438769 CTA-TATTATTATTATT-TATT
1 TTATTATTACTATTATTAT-TT
* * *
106438789 TT-CTATTACTATTATCATTA
1 TTATTATTACTATTATTATTT
* *
106438809 TTATTACTATTATTATT-TTT
1 TTATTATTACTATTATTATTT
* *
106438829 ATTATTTACTACTATTATTTATTA
1 -TTA-TTATTACTATTA-TTATTT
** * *
106438853 TCGTTATTACCATTATTATTG
1 TTATTATTACTATTATTATTT
* *
106438874 CTACTATT-C--TTATTATCTT
1 TTATTATTACTATTATTAT-TT
* *
106438893 TT-TTACTATTATTATTA-TT
1 TTATTATTACTATTATTATTT
106438912 TTATATATTA-TCATTATTAT
1 TTAT-TATTACT-ATTATTAT
106438932 CCTACTTTTA
Statistics
Matches: 170, Mismatches: 49, Indels: 47
0.64 0.18 0.18
Matches are distributed among these distances:
16 1 0.01
17 3 0.02
18 25 0.15
19 7 0.04
20 28 0.16
21 48 0.28
22 52 0.31
23 4 0.02
24 2 0.01
ACGTcount: A:0.27, C:0.09, G:0.02, T:0.62
Consensus pattern (21 bp):
TTATTATTACTATTATTATTT
Found at i:106438888 original size:21 final size:20
Alignment explanation
Indices: 106438864--106438946 Score: 62
Period size: 21 Copynumber: 4.2 Consensus size: 20
106438854 CGTTATTACC
*
106438864 ATTATTATTGCTACTATTCTT
1 ATTATT-TTGCTACTATTATT
**
106438885 ATTATCTTTTTTACTATTATT
1 ATTAT-TTTGCTACTATTATT
* *
106438906 ATTATTTT-ATA-TATTATC
1 ATTATTTTGCTACTATTATT
* * *
106438924 ATTATTATCCTACTTTTATT
1 ATTATTTTGCTACTATTATT
106438944 ATT
1 ATT
106438947 TGTTGTCGTT
Statistics
Matches: 50, Mismatches: 9, Indels: 7
0.76 0.14 0.11
Matches are distributed among these distances:
18 13 0.26
19 4 0.08
20 11 0.22
21 21 0.42
22 1 0.02
ACGTcount: A:0.27, C:0.11, G:0.01, T:0.61
Consensus pattern (20 bp):
ATTATTTTGCTACTATTATT
Found at i:106438946 original size:3 final size:3
Alignment explanation
Indices: 106438667--106438931 Score: 146
Period size: 3 Copynumber: 87.7 Consensus size: 3
106438657 TTTGTCTAAC
* * *
106438667 ATT ATT ATT ATT ATT ATT CTT -TT TTT A-T ATT ATT GTT ATT ATT -TCT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T
** * * * **
106438713 ATTT ATT ATT ACC ATT ATT ATT ACT ATT ATT TTT ATT TTT ATT GCT
1 A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * *
106438759 ATT ACT ATT ACT A-T ATT ATT ATT ATTT ATT TTCT ATT ACT ATT ATC
1 ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT AT-T ATT ATT ATT ATT
* * * *
106438805 ATT ATT ATT ACT ATT ATT ATT TTT ATT ATTT ACT ACT ATT ATTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT A-TT ATT
* * ** ** * * *
106438852 ATC GTT ATT ACC ATT ATT ATT GCT ACT ATT CTT ATT ATCT -TT TTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT
* *
106438897 ACT ATT ATT ATT ATT -TT ATAT ATT ATC ATT ATT AT
1 ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT AT
106438932 CCTACTTTTA
Statistics
Matches: 196, Mismatches: 52, Indels: 28
0.71 0.19 0.10
Matches are distributed among these distances:
2 10 0.05
3 168 0.86
4 17 0.09
5 1 0.01
ACGTcount: A:0.28, C:0.09, G:0.02, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:106440474 original size:22 final size:21
Alignment explanation
Indices: 106440444--106440490 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
106440434 TACAAATTAA
106440444 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
106440466 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
106440487 ATCT
1 ATCT
106440491 AAGATTGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:106440496 original size:19 final size:19
Alignment explanation
Indices: 106440461--106440539 Score: 117
Period size: 19 Copynumber: 4.2 Consensus size: 19
106440451 AGATTACAAG
106440461 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
106440482 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
106440499 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
*
106440518 ATCATATCTAAGATTGTAT
1 ATCATATCTAAGATTGCAT
106440537 ATC
1 ATC
106440540 CTTAAAGATT
Statistics
Matches: 55, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
17 17 0.31
19 29 0.53
20 1 0.02
21 8 0.15
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.39
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:106440516 original size:36 final size:38
Alignment explanation
Indices: 106440461--106440536 Score: 138
Period size: 36 Copynumber: 2.1 Consensus size: 38
106440451 AGATTACAAG
106440461 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGT
1 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGT
106440499 ATCATATC-T-AAGATTGCATATCATATCTAAGATTGT
1 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGT
106440535 AT
1 AT
106440537 ATCCTTAAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
36 29 0.76
37 1 0.03
38 8 0.21
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (38 bp):
ATCATATCTTCAAGATTGCATATCATATCTAAGATTGT
Found at i:106440548 original size:36 final size:34
Alignment explanation
Indices: 106440464--106440549 Score: 118
Period size: 36 Copynumber: 2.4 Consensus size: 34
106440454 TTACAAGATC
106440464 ATATCTTCAAGATTGCATATCATATCTAAGATTGT
1 ATATCTT-AAGATTGCATATCATATCTAAGATTGT
*
106440499 ATCATATCTAAGATTGCATATCATATCTAAGATTGT
1 AT-ATCT-TAAGATTGCATATCATATCTAAGATTGT
106440535 ATATCCTTAAAGATT
1 ATAT-CTT-AAGATT
106440550 ATATTTCCAT
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
35 5 0.11
36 39 0.87
37 1 0.02
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (34 bp):
ATATCTTAAGATTGCATATCATATCTAAGATTGT
Found at i:106440958 original size:26 final size:26
Alignment explanation
Indices: 106440902--106440959 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
106440892 TACATTCATT
106440902 ATTA-TTATATTTTAGGTATTATATC
1 ATTATTTATATTTTAGGTATTATATC
106440927 -TATATTTATA-TTTAGGTATTAATATC
1 AT-TATTTATATTTTAGGTATT-ATATC
106440953 ATTATTT
1 ATTATTT
106440960 TACTATTGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
24 1 0.03
25 12 0.41
26 15 0.52
27 1 0.03
ACGTcount: A:0.33, C:0.03, G:0.07, T:0.57
Consensus pattern (26 bp):
ATTATTTATATTTTAGGTATTATATC
Found at i:106444013 original size:20 final size:20
Alignment explanation
Indices: 106443965--106444013 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
106443955 AATTTTAGCT
* * *
106443965 TTTATCTTCATTTATTTTTA
1 TTTATCTTTAATTATTTATA
* *
106443985 ATTAGCTTTAATTATTTATA
1 TTTATCTTTAATTATTTATA
106444005 TTTATCTTT
1 TTTATCTTT
106444014 TAGAATTTAA
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.24, C:0.08, G:0.02, T:0.65
Consensus pattern (20 bp):
TTTATCTTTAATTATTTATA
Found at i:106447040 original size:89 final size:86
Alignment explanation
Indices: 106446890--106447049 Score: 223
Period size: 89 Copynumber: 1.8 Consensus size: 86
106446880 AAACTTTTTC
* * * * *
106446890 AAAAAAAAAAAACAATTAAGTCCTTTTTTTTGCACTCATTTGGGTATTTGAATTTTCAAAATGCA
1 AAAAAAAAAAAACAATTAAGTCCTTTTTTTTGCACTCAATTGGGCACTTAAACTTTCAAAATGCA
106446955 TCAAAATGGCCCTCATATGTT
66 TCAAAATGGCCCTCATATGTT
*
106446976 AAAAAAAGAAGAAGCAATTAAG-CACTTTTTTTTGGCACTCAATTGGGCACTTAAACTTTCAAAA
1 AAAAAAA-AA-AAACAATTAAGTC-CTTTTTTTT-GCACTCAATTGGGCACTTAAACTTTCAAAA
106447040 TGCATCAAAA
62 TGCATCAAAA
106447050 AGATCCTCAA
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
86 7 0.11
87 3 0.05
88 19 0.30
89 35 0.55
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (86 bp):
AAAAAAAAAAAACAATTAAGTCCTTTTTTTTGCACTCAATTGGGCACTTAAACTTTCAAAATGCA
TCAAAATGGCCCTCATATGTT
Found at i:106447182 original size:28 final size:28
Alignment explanation
Indices: 106447109--106447169 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 28
106447099 CACAAAAATC
** * * *
106447109 ATAAAAAAGATAAAAATTGTAAAATTTT
1 ATAAAAATCATAAAAAATATAAAACTTT
106447137 ATAAAAATCATAAAAAATATAAAACTTT
1 ATAAAAATCATAAAAAATATAAAACTTT
106447165 ATAAA
1 ATAAA
106447170 GTCGTAACAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (28 bp):
ATAAAAATCATAAAAAATATAAAACTTT
Found at i:106447444 original size:38 final size:36
Alignment explanation
Indices: 106447370--106447478 Score: 143
Period size: 38 Copynumber: 3.0 Consensus size: 36
106447360 GGATCGTTAA
106447370 ATTTTTTATTATTTTTATAAAATTTTACA-AATTTTT
1 ATTTTTTATTATTTTTATAAAATTTTA-ATAATTTTT
*
106447406 ATTTTTTATTATTTTTATAAAAAATTTTAATAAATTTT
1 ATTTTTTATTATTTTTAT--AAAATTTTAATAATTTTT
*
106447444 ATCTTTTA-TATTTTTATTAAAA-TTTAATAATTTTT
1 ATTTTTTATTATTTTTA-TAAAATTTTAATAATTTTT
106447479 TTCCTAATTT
Statistics
Matches: 66, Mismatches: 3, Indels: 9
0.85 0.04 0.12
Matches are distributed among these distances:
35 12 0.18
36 22 0.33
37 9 0.14
38 23 0.35
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (36 bp):
ATTTTTTATTATTTTTATAAAATTTTAATAATTTTT
Found at i:106447680 original size:89 final size:89
Alignment explanation
Indices: 106447494--106447805 Score: 504
Period size: 89 Copynumber: 3.5 Consensus size: 89
106447484 AATTTTTAAT
* * * * *
106447494 AAGAGCAGGGGCTTAATTGCTTTTTTCAAAAATTTTGAGAGTCTTTTTGATGCATTTTGAAAGTT
1 AAGAGCAGGGGCTTAATT--TTTTTTGAAGAAGTTTGAGAGCCTTTTTGATGCACTTTGAAAGTT
* *
106447559 CAAGTACCCAATTGAGTG--AAAAAA
64 CAAGTGCTCAATTGAGTGTAAAAAAA
*
106447583 AAGAGCAGGGGCTTAATTTTTTTTGAAGAAGTTTGAGGGCCTTTTTGATGCACTTTGAAAGTTCA
1 AAGAGCAGGGGCTTAATTTTTTTTGAAGAAGTTTGAGAGCCTTTTTGATGCACTTTGAAAGTTCA
106447648 AGTGCTCAATTGAGTGTAAAAAAA
66 AGTGCTCAATTGAGTGTAAAAAAA
*
106447672 AAGAGCAGGGGCTTAATTTTTTTTGAAGAAGTTTGAGGGCCTTTTTGATGCACTTTGAAAGTTCA
1 AAGAGCAGGGGCTTAATTTTTTTTGAAGAAGTTTGAGAGCCTTTTTGATGCACTTTGAAAGTTCA
106447737 AGTGCTCAATTGAGTGTAAAAAAA
66 AGTGCTCAATTGAGTGTAAAAAAA
106447761 AAGAGCAGGGGCTTAATTTTTTTTGAAGAAGTTTGAGAG-CTTTTT
1 AAGAGCAGGGGCTTAATTTTTTTTGAAGAAGTTTGAGAGCCTTTTT
106447806 ATACCTTTTA
Statistics
Matches: 212, Mismatches: 9, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
87 55 0.26
88 6 0.03
89 151 0.71
ACGTcount: A:0.31, C:0.10, G:0.24, T:0.35
Consensus pattern (89 bp):
AAGAGCAGGGGCTTAATTTTTTTTGAAGAAGTTTGAGAGCCTTTTTGATGCACTTTGAAAGTTCA
AGTGCTCAATTGAGTGTAAAAAAA
Found at i:106448383 original size:18 final size:18
Alignment explanation
Indices: 106448360--106448397 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
106448350 GCTTGATCTA
*
106448360 ACTGGTTTGCACTCCAAT
1 ACTGGTTTCCACTCCAAT
106448378 ACTGGTTTCCACTCCAAT
1 ACTGGTTTCCACTCCAAT
106448396 AC
1 AC
106448398 GTAGCTGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.24, C:0.32, G:0.13, T:0.32
Consensus pattern (18 bp):
ACTGGTTTCCACTCCAAT
Found at i:106451947 original size:24 final size:24
Alignment explanation
Indices: 106451920--106451971 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
106451910 TTAGTAAGTC
*
106451920 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
106451944 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
106451968 AAAT
1 AAAT
106451972 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:106460164 original size:42 final size:42
Alignment explanation
Indices: 106460118--106460204 Score: 133
Period size: 42 Copynumber: 2.1 Consensus size: 42
106460108 GAGTTGAACG
*
106460118 GAAGCTCATAAA-AGCTGAATGGAAACCC-TTAAGGGTTAAACT
1 GAAGCTCA-AAATAGCTAAATGGAAACCCATT-AGGGTTAAACT
106460160 GAAGCTCAAAATAGCTAAATGGAAACCCATTAGGGTTAAACT
1 GAAGCTCAAAATAGCTAAATGGAAACCCATTAGGGTTAAACT
106460202 GAA
1 GAA
106460205 ACTTATATAA
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
41 3 0.07
42 37 0.88
43 2 0.05
ACGTcount: A:0.43, C:0.16, G:0.21, T:0.21
Consensus pattern (42 bp):
GAAGCTCAAAATAGCTAAATGGAAACCCATTAGGGTTAAACT
Found at i:106465851 original size:13 final size:13
Alignment explanation
Indices: 106465843--106465867 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
106465833 AAAAAAGTGT
106465843 TTTTGAAAAGTTC
1 TTTTGAAAAGTTC
106465856 TTTTGAAAAGTT
1 TTTTGAAAAGTT
106465868 TGGTTTAAAA
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:0.32, C:0.04, G:0.16, T:0.48
Consensus pattern (13 bp):
TTTTGAAAAGTTC
Found at i:106467502 original size:22 final size:22
Alignment explanation
Indices: 106467434--106467515 Score: 76
Period size: 22 Copynumber: 3.5 Consensus size: 22
106467424 TCAATATAAA
*
106467434 ATTAAATTATATATTATTT-TT
1 ATTAAATTATTTATTATTTATT
* *
106467455 ATTAAATTATATTCAATAATAATTATG
1 ATTAAATTAT-TT--AT--TATTTATT
106467482 ATTAAATTATTTATTATTTATT
1 ATTAAATTATTTATTATTTATT
*
106467504 ATTAAATCATTT
1 ATTAAATTATTT
106467516 TTAATAATAA
Statistics
Matches: 49, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
21 10 0.20
22 18 0.37
24 4 0.08
26 6 0.12
27 11 0.22
ACGTcount: A:0.41, C:0.02, G:0.01, T:0.55
Consensus pattern (22 bp):
ATTAAATTATTTATTATTTATT
Found at i:106467510 original size:49 final size:48
Alignment explanation
Indices: 106467434--106467526 Score: 141
Period size: 49 Copynumber: 1.9 Consensus size: 48
106467424 TCAATATAAA
*
106467434 ATTAAATTATATATTATTTTTATTAAATTATATTCAATAATAATTATG
1 ATTAAATTATATATTATTTTTATTAAATCATATTCAATAATAATTATG
* * *
106467482 ATTAAATTATTTATTATTTATTATTAAATCATTTTTAATAATAAT
1 ATTAAATTATATATTATTT-TTATTAAATCATATTCAATAATAAT
106467527 CCTATTAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
48 18 0.45
49 22 0.55
ACGTcount: A:0.43, C:0.02, G:0.01, T:0.54
Consensus pattern (48 bp):
ATTAAATTATATATTATTTTTATTAAATCATATTCAATAATAATTATG
Found at i:106467538 original size:49 final size:48
Alignment explanation
Indices: 106467434--106467535 Score: 134
Period size: 48 Copynumber: 2.1 Consensus size: 48
106467424 TCAATATAAA
* *
106467434 ATTAAATTATATATTATTTTTATTAAATTATATTCAATAATAATTATG
1 ATTAAATTATATATTATTTTTATTAAATCATATTCAATAATAATCATG
* * * *
106467482 ATTAAATTATTTATTATTTATTATTAAATCATTTTTAATAATAATCCT-
1 ATTAAATTATATATTATTT-TTATTAAATCATATTCAATAATAATCATG
106467530 ATTAAA
1 ATTAAA
106467536 ATTTAATAAC
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
48 24 0.51
49 23 0.49
ACGTcount: A:0.43, C:0.04, G:0.01, T:0.52
Consensus pattern (48 bp):
ATTAAATTATATATTATTTTTATTAAATCATATTCAATAATAATCATG
Found at i:106471053 original size:20 final size:20
Alignment explanation
Indices: 106471028--106471065 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
106471018 ATTTAAGTAT
106471028 TAAAAGATATTTATTAATTA
1 TAAAAGATATTTATTAATTA
106471048 TAAAAGATATTTATTAAT
1 TAAAAGATATTTATTAAT
106471066 GAAATAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (20 bp):
TAAAAGATATTTATTAATTA
Found at i:106475535 original size:44 final size:44
Alignment explanation
Indices: 106475336--106475585 Score: 178
Period size: 44 Copynumber: 5.6 Consensus size: 44
106475326 TTTAACCTGT
* * * ** * *
106475336 TCCACTGCAACTTCAGGGAAATAAGATTTGCTATTTTCAGTCTGC
1 TCCACTGCAACTTCAAGGAGATAAGATCTG-TAACTTCAATCTAC
* * * * *
106475381 CCCACTGCAATTTCAAGGAGATAAGA-CTTGTAACTTTAACCTGC
1 TCCACTGCAACTTCAAGGAGATAAGATC-TGTAACTTCAATCTAC
* * * * * * *
106475425 TCCACTGCAACTTCAGGGGGATAAGGTTTGCTATTCTTCGATCTAT
1 TCCACTGCAACTTCAAGGAGATAAGATCTG-TA-ACTTCAATCTAC
*
106475471 TCCACTGCAACTTCAGGGAGATAAGATCTGTAACTTCAATCTAC
1 TCCACTGCAACTTCAAGGAGATAAGATCTGTAACTTCAATCTAC
* * * * * * *
106475515 TCCTCTGTAACTTTAAGGAGATGAGATGTGTGACTTCAATCTGC
1 TCCACTGCAACTTCAAGGAGATAAGATCTGTAACTTCAATCTAC
* * * *
106475559 TCCACTACAATTTCAGGGAGACAAGAT
1 TCCACTGCAACTTCAAGGAGATAAGAT
106475586 TCACCATGGT
Statistics
Matches: 157, Mismatches: 44, Indels: 9
0.75 0.21 0.04
Matches are distributed among these distances:
44 96 0.61
45 28 0.18
46 33 0.21
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.30
Consensus pattern (44 bp):
TCCACTGCAACTTCAAGGAGATAAGATCTGTAACTTCAATCTAC
Found at i:106477544 original size:13 final size:13
Alignment explanation
Indices: 106477528--106477565 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
106477518 AATAAAATAA
*
106477528 TAAAATATCTTAT
1 TAAAATATATTAT
106477541 TAAAATATATTAT
1 TAAAATATATTAT
106477554 TAAAATAATATT
1 TAAAAT-ATATT
106477566 TATCTAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 18 0.78
14 5 0.22
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (13 bp):
TAAAATATATTAT
Found at i:106477564 original size:29 final size:28
Alignment explanation
Indices: 106477514--106477589 Score: 70
Period size: 29 Copynumber: 2.7 Consensus size: 28
106477504 ACTTAATAAA
*
106477514 TAATAATAA-AATAATAA-AATATCTTAT-
1 TAATAATAATTATAA-AATAATAT-TTATC
106477541 TAA-AATATATTATTAAAATAATATTTATC
1 TAATAATA-ATTA-TAAAATAATATTTATC
106477570 TAATTAATAATTATAAAATA
1 TAA-TAATAATTATAAAATA
106477590 TCATCAACAT
Statistics
Matches: 41, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
26 4 0.10
27 4 0.10
28 7 0.17
29 18 0.44
30 4 0.10
31 4 0.10
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (28 bp):
TAATAATAATTATAAAATAATATTTATC
Found at i:106477568 original size:15 final size:15
Alignment explanation
Indices: 106477531--106477589 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 15
106477521 AAAATAATAA
106477531 AATATCTTATTAAAAT
1 AATAT-TTATTAAAAT
106477547 -ATA-TTATTAAAAT
1 AATATTTATTAAAAT
*
106477560 AATATTTATCT-AATT
1 AATATTTAT-TAAAAT
*
106477575 AATAATTA-TAAAAT
1 AATATTTATTAAAAT
106477589 A
1 A
106477590 TCATCAACAT
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
13 11 0.31
14 7 0.19
15 17 0.47
16 1 0.03
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (15 bp):
AATATTTATTAAAAT
Found at i:106477580 original size:18 final size:19
Alignment explanation
Indices: 106477523--106477580 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 19
106477513 ATAATAATAA
* * *
106477523 AATAATAAAATATCTTATT
1 AATAATATATTATCTAATT
106477542 AA-AATATATTAT-TAA--
1 AATAATATATTATCTAATT
106477557 AATAATAT-TTATCTAATT
1 AATAATATATTATCTAATT
106477575 AATAAT
1 AATAAT
106477581 TATAAAATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
15 6 0.19
16 8 0.25
17 2 0.06
18 14 0.44
19 2 0.06
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (19 bp):
AATAATATATTATCTAATT
Found at i:106478621 original size:30 final size:31
Alignment explanation
Indices: 106478581--106478649 Score: 104
Period size: 30 Copynumber: 2.3 Consensus size: 31
106478571 GGATAATTTC
*
106478581 TTAACCACCCACATCCCATTAAGT-CCATAA
1 TTAACCACCCACATCCCACTAAGTCCCATAA
* *
106478611 TTAACTACCCACGTCCCACTAAGTCCCATAA
1 TTAACCACCCACATCCCACTAAGTCCCATAA
106478642 TTAACCAC
1 TTAACCAC
106478650 ATTCGTAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.62
31 13 0.38
ACGTcount: A:0.35, C:0.38, G:0.04, T:0.23
Consensus pattern (31 bp):
TTAACCACCCACATCCCACTAAGTCCCATAA
Found at i:106480094 original size:12 final size:12
Alignment explanation
Indices: 106480077--106480110 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
106480067 AATGCTATTA
106480077 TATTTATTTTAT
1 TATTTATTTTAT
* *
106480089 TATTTATATAAT
1 TATTTATTTTAT
106480101 TATTTATTTT
1 TATTTATTTT
106480111 TTAATTATGT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (12 bp):
TATTTATTTTAT
Found at i:106485448 original size:17 final size:19
Alignment explanation
Indices: 106485409--106485450 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 19
106485399 CCTTTTTTTA
106485409 TTTT-TGCTCTGCTATGTT
1 TTTTCTGCTCTGCTATGTT
*
106485427 ATTTCTGCTCT-CT-TGTT
1 TTTTCTGCTCTGCTATGTT
106485444 TTTTCTG
1 TTTTCTG
106485451 TTTTGCAGGC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 10 0.48
18 5 0.24
19 6 0.29
ACGTcount: A:0.05, C:0.19, G:0.14, T:0.62
Consensus pattern (19 bp):
TTTTCTGCTCTGCTATGTT
Found at i:106486126 original size:10 final size:10
Alignment explanation
Indices: 106486113--106486163 Score: 66
Period size: 10 Copynumber: 5.0 Consensus size: 10
106486103 ATTTAATTTC
106486113 ATTTATCTTT
1 ATTTATCTTT
106486123 ATTTATCTTT
1 ATTTATCTTT
*
106486133 AATTATCTTT
1 ATTTATCTTT
* *
106486143 AATTATTTATT
1 ATTTATCT-TT
106486154 ATTTATCTTT
1 ATTTATCTTT
106486164 TAGAATTTCA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
10 28 0.78
11 8 0.22
ACGTcount: A:0.25, C:0.08, G:0.00, T:0.67
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:106487415 original size:44 final size:44
Alignment explanation
Indices: 106487300--106487428 Score: 118
Period size: 44 Copynumber: 2.9 Consensus size: 44
106487290 TTGTTGTTGT
* * * * *
106487300 AGCTTCATTCTAAC-CCACTGCAACTTCAAGGATATAGGAATTGG
1 AGCTTCAATCT-ACTCCACTGCAACTTCAAGGAGATAAGATTTAG
* * * * * *
106487344 AGCTTCAATCTGCTCTACTACAGCTTCAGGGAGATAAGATTTAT
1 AGCTTCAATCTACTCCACTGCAACTTCAAGGAGATAAGATTTAG
*
106487388 AGCTTCAATAC-ACTCCACTGCAACTTCAAAGAGATAAGATT
1 AGCTTCAAT-CTACTCCACTGCAACTTCAAGGAGATAAGATT
106487429 CACTATAGTA
Statistics
Matches: 66, Mismatches: 17, Indels: 4
0.76 0.20 0.05
Matches are distributed among these distances:
43 1 0.02
44 64 0.97
45 1 0.02
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.28
Consensus pattern (44 bp):
AGCTTCAATCTACTCCACTGCAACTTCAAGGAGATAAGATTTAG
Found at i:106487515 original size:93 final size:92
Alignment explanation
Indices: 106487385--106487749 Score: 295
Period size: 94 Copynumber: 3.9 Consensus size: 92
106487375 AGATAAGATT
* **
106487385 TATAGCTTCAATAC-ACTCCACTGCAACTTCAAAGAGATAAGATTCACTATAGTAGATTCAATCC
1 TATAGCTTCAAT-CTTCTCCACTGCAACTTCAGGGAGATAAGATTCACTATAGTAGATTCAATCC
*
106487449 ATCCCACTACAACTTCAGAGGGTGGGATC
65 AACCCACTACAACTTCAG-GGGTGGGATC
* * * * ** * *
106487478 TATAGCTT-TATTTTGCTCTACTGCAAATTCAGGGAGATAAGATTCGTTATCGTAG-TTCCATTC
1 TATAGCTTCAATCTT-CTCCACTGCAACTTCAGGGAGATAAGATTCACTATAGTAGATT-CAATC
* * * *
106487541 AAACCCACTGCAACTTCAGGGGTTGGATT
64 CAACCCACTACAACTTCAGGGGTGGGATC
* * * *
106487570 TGTAGCTTCAATCTTCTCCACTACAACTTCAGGGAGATAAGATTTACTATGGTAGATTCAATCCA
1 TATAGCTTCAATCTTCTCCACTGCAACTTCAGGGAGATAAGATTCACTATAGTAGATTCAATCCA
** * * * * * *
106487635 ATTCACTGCAATTTTAAGGGTGCATGATT
66 ACCCACTACAACTTCAGGGGTG--GGATC
* * * * * ** * *
106487664 TGTAGCTTCAATCTACTCCACTGCAACTTCAGGAAGATAAAATTCTCTATAACAAATTCAATCTA
1 TATAGCTTCAATCTTCTCCACTGCAACTTCAGGGAGATAAGATTCACTATAGTAGATTCAATCCA
* * *
106487729 ACCCATTGCAACTTCAAGGGT
66 ACCCACTACAACTTCAGGGGT
106487750 ATAGGATTTG
Statistics
Matches: 214, Mismatches: 51, Indels: 13
0.77 0.18 0.05
Matches are distributed among these distances:
92 73 0.34
93 67 0.31
94 74 0.35
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (92 bp):
TATAGCTTCAATCTTCTCCACTGCAACTTCAGGGAGATAAGATTCACTATAGTAGATTCAATCCA
ACCCACTACAACTTCAGGGGTGGGATC
Found at i:106487792 original size:50 final size:48
Alignment explanation
Indices: 106487738--106487856 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 48
106487728 AACCCATTGC
106487738 AACTTCAAGGGTATAGGATTTGTAGTTGTAGCTTCATTCCAACTC-ACTGT
1 AACTTCAAGGG-ATA-GATTTGTAGTTGTAGCTTCA-TCCAACTCTACTGT
* * * **
106487788 AACTT-TAGGGAT--ATATG-AATTGTAGCTTCATCCTGCTCTACTGT
1 AACTTCAAGGGATAGATTTGTAGTTGTAGCTTCATCCAACTCTACTGT
106487832 AACTTCAAGGAGATAAGATTTGTAG
1 AACTTCAAGG-GAT-AGATTTGTAG
106487857 CTTCAATCTG
Statistics
Matches: 54, Mismatches: 8, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
43 6 0.11
44 22 0.41
45 7 0.13
46 3 0.06
48 2 0.04
49 8 0.15
50 6 0.11
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (48 bp):
AACTTCAAGGGATAGATTTGTAGTTGTAGCTTCATCCAACTCTACTGT
Found at i:106487868 original size:44 final size:44
Alignment explanation
Indices: 106487763--106487895 Score: 144
Period size: 44 Copynumber: 3.0 Consensus size: 44
106487753 GGATTTGTAG
** * * * *
106487763 TTGTAGCTTCATTCCAACT-CACTGTAACTTTAGGGATATATGAA
1 TTGTAGCTTCA-TCCTGCTCCACTGTAACTTCAGGGAGATAAGAT
* *
106487807 TTGTAGCTTCATCCTGCTCTACTGTAACTTCAAGGAGATAAGAT
1 TTGTAGCTTCATCCTGCTCCACTGTAACTTCAGGGAGATAAGAT
**
106487851 TTGTAGCTTCAAT-CTGCTCCACTACAACTTCAGGGAGATAAGAT
1 TTGTAGCTTC-ATCCTGCTCCACTGTAACTTCAGGGAGATAAGAT
106487895 T
1 T
106487896 CGCTATAGTA
Statistics
Matches: 75, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
43 5 0.07
44 68 0.91
45 2 0.03
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (44 bp):
TTGTAGCTTCATCCTGCTCCACTGTAACTTCAGGGAGATAAGAT
Found at i:106489670 original size:28 final size:28
Alignment explanation
Indices: 106489628--106489685 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
106489618 CGGGGCATAG
* *
106489628 TTACCCAAATTAATTTTTTAAATTTGCT
1 TTACCCAAATCAATTTTCTAAATTTGCT
106489656 TTACCCAAATCAATTTTCTAAATTTGCT
1 TTACCCAAATCAATTTTCTAAATTTGCT
106489684 TT
1 TT
106489686 CTTTCAAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.31, C:0.17, G:0.03, T:0.48
Consensus pattern (28 bp):
TTACCCAAATCAATTTTCTAAATTTGCT
Found at i:106490350 original size:10 final size:8
Alignment explanation
Indices: 106490335--106490361 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
106490325 TGATGACACA
106490335 TGATATAT
1 TGATATAT
106490343 TGATATAT
1 TGATATAT
106490351 TGATATAT
1 TGATATAT
106490359 TGA
1 TGA
106490362 AATGGGTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (8 bp):
TGATATAT
Found at i:106503217 original size:22 final size:22
Alignment explanation
Indices: 106503192--106503235 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
106503182 TGAACTAAGT
106503192 GCAAAATTGTGAGATGTGATTA
1 GCAAAATTGTGAGATGTGATTA
106503214 GCAAAATTGTGAGATGTGATTA
1 GCAAAATTGTGAGATGTGATTA
106503236 AATAGCTTAA
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:0.36, C:0.05, G:0.27, T:0.32
Consensus pattern (22 bp):
GCAAAATTGTGAGATGTGATTA
Done.