Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 185 of 328
Found at i:55119305 original size:25 final size:24
Alignment explanation
Indices: 55119267--55119333 Score: 89
Period size: 25 Copynumber: 2.7 Consensus size: 24
55119257 AGGAAGTGTT
*
55119267 AAAAGGGCTCTGCCCCAGTATACC
1 AAAAGGGCTTTGCCCCAGTATACC
* *
55119291 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTATACC
55119316 AGAAAGGGCTTTGCCCCA
1 A-AAAGGGCTTTGCCCCA
55119334 ATTATTAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
24 1 0.03
25 37 0.97
ACGTcount: A:0.27, C:0.28, G:0.24, T:0.21
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTATACC
Found at i:55119349 original size:24 final size:24
Alignment explanation
Indices: 55119267--55119349 Score: 80
Period size: 25 Copynumber: 3.4 Consensus size: 24
55119257 AGGAAGTGTT
* *
55119267 AAAAGGGCTCTGCCCCAG-TATACC
1 AAAAGGGCTTTGCCCCAGAT-TATC
*
55119291 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGATTATC
*
55119316 AGAAAGGGCTTTGCCCCA-ATTATT
1 A-AAAGGGCTTTGCCCCAGATTATC
55119340 AAAAGAGGCT
1 AAAAG-GGCT
55119350 AGGCCTCCAG
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
23 4 0.08
24 10 0.20
25 36 0.71
26 1 0.02
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.23
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGATTATC
Found at i:55121894 original size:27 final size:27
Alignment explanation
Indices: 55121864--55122088 Score: 236
Period size: 27 Copynumber: 8.3 Consensus size: 27
55121854 TACTGAAATG
** *
55121864 CCCTCGATTTGTAGAATTGCCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* ** *
55121891 CCCTCGATTTATAGAATTACTGTTTCA
1 CCCTCGATTTACAGAATTACCATTTTA
* * * *
55121918 CCCTCGATTTACAAAATTATCGTTTCA
1 CCCTCGATTTACAGAATTACCATTTTA
* * *
55121945 CCCTCGATTTACAAAATTATCGTTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* *
55121972 TCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
*
55121999 CCCTCTATTTACAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
*
55122026 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* * * *
55122053 TCCT-TAGTTTACAAAATTACCGTTTTA
1 CCCTCGA-TTTACAGAATTACCATTTTA
55122080 CCCTCGATT
1 CCCTCGATT
55122089 GTGAAATTAC
Statistics
Matches: 171, Mismatches: 25, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 1 0.01
27 169 0.99
28 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.08, T:0.40
Consensus pattern (27 bp):
CCCTCGATTTACAGAATTACCATTTTA
Found at i:55121951 original size:81 final size:81
Alignment explanation
Indices: 55121864--55122088 Score: 272
Period size: 81 Copynumber: 2.8 Consensus size: 81
55121854 TACTGAAATG
** * * * * *
55121864 CCCTCGATTTGTAGAATTGCCATTTTACCCTCGATTTATAGAATTACTGTTTCACCCTCGATTTA
1 CCCTCGATTTACAAAATTACCATTTTATCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTA
* *
55121929 CAAAATTATCGTTTCA
66 CAAAATTACCATTTCA
* * * *
55121945 CCCTCGATTTACAAAATTATCGTTTTATCCTCGATTTATAGAATTACCATTTTACCCTCTATTTA
1 CCCTCGATTTACAAAATTACCATTTTATCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTA
* *
55122010 CAGAATTACCATTTTA
66 CAAAATTACCATTTCA
* * *
55122026 CCCTCGATTTACAAAATTACCATTTTATCCT-TAGTTTACAAAATTACCGTTTTACCCTCGATT
1 CCCTCGATTTACAAAATTACCATTTTATCCTCGA-TTTATAGAATTACCGTTTTACCCTCGATT
55122089 GTGAAATTAC
Statistics
Matches: 121, Mismatches: 22, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
80 1 0.01
81 120 0.99
ACGTcount: A:0.28, C:0.24, G:0.08, T:0.40
Consensus pattern (81 bp):
CCCTCGATTTACAAAATTACCATTTTATCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTA
CAAAATTACCATTTCA
Found at i:55122176 original size:80 final size:81
Alignment explanation
Indices: 55122087--55122269 Score: 214
Period size: 80 Copynumber: 2.3 Consensus size: 81
55122077 TTACCCTCGA
* *
55122087 TTGTGAAATTACTGAAATACCCCT-GTAGGAT-AGAATTACCAAAATACCC-CTAGTTTGT-AAA
1 TTGTAAAATTACTGAAATACCCCTGGTAGG-TGA-AATTACCAAAATACCCTC-AATTTGTAAAA
55122148 TTACCAAAATACCCCT-AGT
63 TTACCAAAATACCCCTGA-T
* ** *
55122167 TTGTAAAATTACTGAAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTA
1 TTGTAAAATTACTGAAATACCCCTGGTAGGTGAAATTACCAAAATACCCTCAATTTGTAAAATTA
55122232 CCAAAATACCCCTGAT
66 CCAAAATACCCCTGAT
** *
55122248 TTACAAAATTACAGAAATACCC
1 TTGTAAAATTACTGAAATACCC
55122270 TTGACTTTCT
Statistics
Matches: 88, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
80 44 0.50
81 43 0.49
82 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (81 bp):
TTGTAAAATTACTGAAATACCCCTGGTAGGTGAAATTACCAAAATACCCTCAATTTGTAAAATTA
CCAAAATACCCCTGAT
Found at i:55122184 original size:27 final size:27
Alignment explanation
Indices: 55122087--55122269 Score: 167
Period size: 27 Copynumber: 6.8 Consensus size: 27
55122077 TTACCCTCGA
* *
55122087 TTGTGAAATTACTGAAATACCCCT-GT
1 TTGTAAAATTACCGAAATACCCCTAGT
** * *
55122113 AGGATAGAATTACCAAAATACCCCTAGT
1 TTG-TAAAATTACCGAAATACCCCTAGT
*
55122141 TTGT-AAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCGAAATACCCCTAGT
* * *
55122167 TTGTAAAATTACTGAAATACCACTGGT
1 TTGTAAAATTACCGAAATACCCCTAGT
* *
55122194 TTGTGAAATTACCGAAATA-CCCTCAAT
1 TTGTAAAATTACCGAAATACCCCT-AGT
*
55122221 TTGTAAAATTACCAAAATACCCCT-GAT
1 TTGTAAAATTACCGAAATACCCCTAG-T
** *
55122248 TTACAAAATTACAGAAATACCC
1 TTGTAAAATTACCGAAATACCC
55122270 TTGACTTTCT
Statistics
Matches: 126, Mismatches: 25, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
26 29 0.23
27 90 0.71
28 7 0.06
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (27 bp):
TTGTAAAATTACCGAAATACCCCTAGT
Found at i:55122224 original size:54 final size:54
Alignment explanation
Indices: 55122145--55122324 Score: 175
Period size: 54 Copynumber: 3.3 Consensus size: 54
55122135 CCTAGTTTGT
* * ***
55122145 AAATTACCAAAATACCC-CTAGTTTGTAAAATTACTGAAATACCACTGGTTTGTG
1 AAATTACCGAAATACCCTC-AATTTGTAAAATTACTGAAATACCACTGGTTTACA
** * *
55122199 AAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACA
1 AAATTACCGAAATACCCTCAATTTGTAAAATTACTGAAATACCACTGGTTTACA
* * * * *
55122253 AAATTACAGAAATACCCTTGACTTTCTAAAAATTA-TAGAAATACCATTGGTTTACA
1 AAATTACCGAAATACCC-TCAATTTGT-AAAATTACT-GAAATACCACTGGTTTACA
*
55122309 AAATTACTGAAATACC
1 AAATTACCGAAATACC
55122325 TTGGTTTGTA
Statistics
Matches: 103, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
54 59 0.57
55 7 0.07
56 37 0.36
ACGTcount: A:0.42, C:0.19, G:0.09, T:0.30
Consensus pattern (54 bp):
AAATTACCGAAATACCCTCAATTTGTAAAATTACTGAAATACCACTGGTTTACA
Found at i:55122320 original size:27 final size:27
Alignment explanation
Indices: 55122171--55122331 Score: 105
Period size: 27 Copynumber: 5.9 Consensus size: 27
55122161 CCTAGTTTGT
**
55122171 AAAATTACTGAAATACCAC-TGGTTTGT
1 AAAATTACTGAAATACC-CTTGGTTTAC
* * *** **
55122198 GAAATTACCGAAATACCCTCAATTTGT
1 AAAATTACTGAAATACCCTTGGTTTAC
** * *
55122225 AAAATTACCAAAATACCCCTGATTTAC
1 AAAATTACTGAAATACCCTTGGTTTAC
* *
55122252 AAAATTACAGAAATACCCTTGACTTT-C
1 AAAATTACTGAAATACCCTTG-GTTTAC
*
55122279 TAAAAATTA-TAGAAATACCATTGGTTTAC
1 --AAAATTACT-GAAATACCCTTGGTTTAC
55122308 AAAATTACTGAAATA-CCTTGGTTT
1 AAAATTACTGAAATACCCTTGGTTT
55122332 GTAGATTTAC
Statistics
Matches: 107, Mismatches: 20, Indels: 15
0.75 0.14 0.11
Matches are distributed among these distances:
26 9 0.08
27 72 0.67
28 7 0.07
29 19 0.18
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (27 bp):
AAAATTACTGAAATACCCTTGGTTTAC
Found at i:55123307 original size:25 final size:25
Alignment explanation
Indices: 55123254--55123322 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
55123244 AGGAAGTGCT
* *
55123254 AAAAGGGCTCTG-CCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACAG
55123278 AAAAGGGCTTTGCCCCAGTTTATCAG
1 AAAAGGGCTTTGCCCCAGTTTA-CAG
55123304 -AAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
55123323 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
24 11 0.27
25 28 0.68
26 2 0.05
ACGTcount: A:0.25, C:0.26, G:0.25, T:0.25
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACAG
Found at i:55123335 original size:24 final size:23
Alignment explanation
Indices: 55123254--55123349 Score: 86
Period size: 25 Copynumber: 4.0 Consensus size: 23
55123244 AGGAAGTGCT
* *
55123254 AAAAGGGCTCTG-CCCAGTTTACC
1 AAAAGGGCTTTGCCCCAG-TTATC
55123277 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAG-TTATC
*
55123302 AGAAAGGGCTTTGCCCCAGTTATT
1 A-AAAGGGCTTTGCCCCAGTTATC
**
55123326 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAG-GGCTTTGCC-CCAGTTAT
55123350 ATGATAAAGC
Statistics
Matches: 63, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
23 4 0.06
24 24 0.38
25 35 0.56
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (23 bp):
AAAAGGGCTTTGCCCCAGTTATC
Found at i:55123528 original size:42 final size:42
Alignment explanation
Indices: 55123469--55123602 Score: 241
Period size: 42 Copynumber: 3.2 Consensus size: 42
55123459 GTAGTCTCCC
55123469 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
55123511 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
* * *
55123553 AATTAGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
55123595 AAATGGGC
1 AAATGGGC
55123603 CTAAGGGCCA
Statistics
Matches: 87, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 87 1.00
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.34
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
Found at i:55123661 original size:31 final size:31
Alignment explanation
Indices: 55123626--55123740 Score: 178
Period size: 31 Copynumber: 3.7 Consensus size: 31
55123616 CGTTTACAGT
* *
55123626 AAAGGCTTCGGCCCAATGATGTGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
55123657 AAAGGTTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
55123688 AAAGGCTTCGGCCCAGTGGTATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
55123719 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
55123741 TCAAGACTAA
Statistics
Matches: 77, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
30 4 0.05
31 73 0.95
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:55128607 original size:56 final size:54
Alignment explanation
Indices: 55128495--55128645 Score: 196
Period size: 56 Copynumber: 2.7 Consensus size: 54
55128485 ACATAGCACA
* *
55128495 CCTCTCAACAGGGCTACATATGAGCACCCGGACCTAGCATGCATCACATTACCATG
1 CCTCTCAACAGGGCTACATA--AGCTCCCGGACCTAGCATGCACCACATTACCATG
* *
55128551 CCTCTCAACAGGGCTACATAAGCTCCCGGACCTAGCGTGTACCACATAATTA-CATG
1 CCTCTCAACAGGGCTACATAAGCTCCCGGACCTAGCATGCACCAC---ATTACCATG
* *
55128607 CCTCTCAACGGGGCTACATAAGCTCCCGGACCTAACATG
1 CCTCTCAACAGGGCTACATAAGCTCCCGGACCTAGCATG
55128646 TATCATGTCA
Statistics
Matches: 85, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
54 21 0.25
56 60 0.71
57 4 0.05
ACGTcount: A:0.28, C:0.34, G:0.19, T:0.20
Consensus pattern (54 bp):
CCTCTCAACAGGGCTACATAAGCTCCCGGACCTAGCATGCACCACATTACCATG
Found at i:55135314 original size:40 final size:39
Alignment explanation
Indices: 55135215--55135365 Score: 180
Period size: 40 Copynumber: 3.8 Consensus size: 39
55135205 TGGATGATAA
* * * *
55135215 CCGGGCTAAGTCCCGAAGGCATCTGTGCTAGTGACTAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAT
*
55135254 CCCGGGC-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACT-AAT
*
55135294 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTCACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCA--CTAAT
* *
55135334 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
55135366 AGCTATATCC
Statistics
Matches: 98, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
39 32 0.33
40 62 0.63
41 2 0.02
42 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.30, T:0.22
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAT
Found at i:55140275 original size:39 final size:39
Alignment explanation
Indices: 55140231--55140344 Score: 192
Period size: 39 Copynumber: 2.9 Consensus size: 39
55140221 GTGCTGAGAT
* *
55140231 TGTATCCGGGTTAGAGTCCCGCAGGCTTCGTGCTGGAAA
1 TGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAA
*
55140270 TGTATCCGGGCTAAAGTCCCGCAGGCTTCATGCTGGAAA
1 TGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAA
*
55140309 TGTATTCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
1 TGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
55140345 TGCTGGTAAT
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 70 1.00
ACGTcount: A:0.18, C:0.25, G:0.32, T:0.25
Consensus pattern (39 bp):
TGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAA
Found at i:55143028 original size:20 final size:20
Alignment explanation
Indices: 55143004--55143044 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
55142994 GAAAAAACAA
* *
55143004 AAAAAAAAAAGAAATTAAGTT
1 AAAATAAAAA-AAATAAAGTT
55143025 AAAATAAAAAAAATAAAGTT
1 AAAATAAAAAAAATAAAGTT
55143045 TTCTCATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (20 bp):
AAAATAAAAAAAATAAAGTT
Found at i:55143932 original size:54 final size:54
Alignment explanation
Indices: 55143868--55143976 Score: 209
Period size: 54 Copynumber: 2.0 Consensus size: 54
55143858 TATTATTTAA
*
55143868 ATGACTCAACCACAATAAGGGAGTAAGGCAGAGTAAGAAAATTTTAGTGTACTT
1 ATGACTCAACCACAATAAGGGAGTAAGGCAGAGTAAGAAAATCTTAGTGTACTT
55143922 ATGACTCAACCACAATAAGGGAGTAAGGCAGAGTAAGAAAATCTTAGTGTACTT
1 ATGACTCAACCACAATAAGGGAGTAAGGCAGAGTAAGAAAATCTTAGTGTACTT
55143976 A
1 A
55143977 CTATGATCTT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.41, C:0.14, G:0.22, T:0.23
Consensus pattern (54 bp):
ATGACTCAACCACAATAAGGGAGTAAGGCAGAGTAAGAAAATCTTAGTGTACTT
Found at i:55144739 original size:28 final size:30
Alignment explanation
Indices: 55144685--55144746 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 30
55144675 GTTGAGATTC
*
55144685 TCAACTTAATCCTTAAACAAAATC-AAAAT
1 TCAACTTAATCCTTAAACAAAACCAAAAAT
*
55144714 TCAATTTAAT-CTTAAA-ATAAACCAAAAAT
1 TCAACTTAATCCTTAAACA-AAACCAAAAAT
55144743 TCAA
1 TCAA
55144747 ATAAGTTTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 1 0.03
28 10 0.34
29 18 0.62
ACGTcount: A:0.53, C:0.18, G:0.00, T:0.29
Consensus pattern (30 bp):
TCAACTTAATCCTTAAACAAAACCAAAAAT
Found at i:55147247 original size:3 final size:3
Alignment explanation
Indices: 55147241--55147268 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
55147231 ATAATAATAA
55147241 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
55147269 TTAGATGAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:55149906 original size:13 final size:14
Alignment explanation
Indices: 55149870--55149907 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
55149860 TTCTTTAAAC
*
55149870 TTTCATCTCTTTTT
1 TTTCATCTCTTTTG
55149884 TTTCATTCTCTTTTG
1 TTTCA-TCTCTTTTG
55149899 TTTC-TCTCT
1 TTTCATCTCT
55149908 CTCTTTTCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 5 0.23
14 5 0.23
15 12 0.55
ACGTcount: A:0.05, C:0.24, G:0.03, T:0.68
Consensus pattern (14 bp):
TTTCATCTCTTTTG
Found at i:55150815 original size:3 final size:3
Alignment explanation
Indices: 55150807--55150833 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
55150797 TTAATAACAG
55150807 AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA
55150834 GACTGTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:55151634 original size:17 final size:18
Alignment explanation
Indices: 55151612--55151647 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
55151602 CCATCCCAAA
*
55151612 TCCTTTTTTTTC-TCTTC
1 TCCTTTTTTGTCTTCTTC
55151629 TCCTTTTTTGTCTTCTTC
1 TCCTTTTTTGTCTTCTTC
55151647 T
1 T
55151648 TTTTCTTCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.00, C:0.28, G:0.03, T:0.69
Consensus pattern (18 bp):
TCCTTTTTTGTCTTCTTC
Found at i:55151650 original size:14 final size:15
Alignment explanation
Indices: 55151617--55151651 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
55151607 CCAAATCCTT
55151617 TTTTTTCTCTTCTCC
1 TTTTTTCTCTTCTCC
* *
55151632 TTTTTTGTCTTCTTC
1 TTTTTTCTCTTCTCC
55151647 TTTTT
1 TTTTT
55151652 CTTCTAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.00, C:0.23, G:0.03, T:0.74
Consensus pattern (15 bp):
TTTTTTCTCTTCTCC
Found at i:55153122 original size:42 final size:43
Alignment explanation
Indices: 55153076--55153166 Score: 109
Period size: 42 Copynumber: 2.2 Consensus size: 43
55153066 AATCATACCA
* *
55153076 ATGCCATATA-C-CAGGTATAGTCTTACATGGGA-TCTCATATCG
1 ATGCCATATAGCACAGCTATAGTCTTACA--CGATTCTCATATCG
*
55153118 ATGCCA-ATAGCACAGCTATGGTCTTACACGATTCTCATATCG
1 ATGCCATATAGCACAGCTATAGTCTTACACGATTCTCATATCG
55153160 ATGCCAT
1 ATGCCAT
55153167 GTCCCAGACA
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
41 5 0.12
42 23 0.55
43 14 0.33
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.30
Consensus pattern (43 bp):
ATGCCATATAGCACAGCTATAGTCTTACACGATTCTCATATCG
Found at i:55153196 original size:42 final size:42
Alignment explanation
Indices: 55153107--55153198 Score: 109
Period size: 42 Copynumber: 2.2 Consensus size: 42
55153097 CTTACATGGG
*
55153107 ATCTCATATCGATGCCAATAGCACAGCTATGGTCTTACACGA
1 ATCTCATATCGATGCCAATAGCACAGCTATGGTCCTACACGA
* *
55153149 TTCTCATATCGATGCC-AT-GTCCCAGAC-ATGGTCCTACACGAA
1 ATCTCATATCGATGCCAATAG-CACAG-CTATGGTCCTACACG-A
55153191 ATCTCATA
1 ATCTCATA
55153199 ATGATGAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
40 1 0.02
41 18 0.42
42 24 0.56
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (42 bp):
ATCTCATATCGATGCCAATAGCACAGCTATGGTCCTACACGA
Found at i:55157283 original size:93 final size:93
Alignment explanation
Indices: 55157152--55157323 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
55157142 GCCCATAAGT
* * *
55157152 GAACTCGGATTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
55157217 TGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* * *
55157245 GAACTCGGACTCAACTCAATGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
55157310 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
55157324 CAAACATCCT
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:55157319 original size:46 final size:46
Alignment explanation
Indices: 55157144--55157319 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
55157134 TGTAACCCGC
* * * *
55157144 CCATAAGTGAACTCGGATTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
* * *
55157190 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTGCAT
* * *
55157240 CTC-T---CGAACTCGGACTCAACTCAATGAGTTCGGACATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
*
55157283 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
55157320 TGCCCAAACA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 1 0.01
43 8 0.07
44 1 0.01
46 62 0.57
47 28 0.26
49 1 0.01
50 6 0.06
51 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
Found at i:55157338 original size:46 final size:46
Alignment explanation
Indices: 55157195--55157338 Score: 143
Period size: 46 Copynumber: 3.1 Consensus size: 46
55157185 CGCATCCATA
*
55157195 AGTGAACTCGGACTCAACTCAATGAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTA--TACATC-CT
* * * *
55157244 --CGAACTCGGACTCAACTCAATGAGTTCGGA--CATTTGCATCCAT
1 AGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTATACATCC-T
* * *
55157287 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCT
1 -AGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTATACATCCT
55157334 AGTGA
1 AGTGA
55157339 CATGTCACTT
Statistics
Matches: 77, Mismatches: 12, Indels: 15
0.74 0.12 0.14
Matches are distributed among these distances:
42 1 0.01
43 6 0.08
45 2 0.03
46 33 0.43
47 29 0.38
48 6 0.08
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTATACATCCT
Found at i:55161550 original size:30 final size:30
Alignment explanation
Indices: 55161506--55161594 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
55161496 CAAAGATAAC
55161506 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
55161535 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
55161565 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
55161595 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:55161554 original size:15 final size:15
Alignment explanation
Indices: 55161506--55161585 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
55161496 CAAAGATAAC
*
55161506 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
55161520 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
55161535 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
55161550 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
55161565 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
55161580 AAGAAA
1 AAGAAA
55161586 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:55161594 original size:15 final size:15
Alignment explanation
Indices: 55161517--55161594 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
55161507 AGAAAACCGA
55161517 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
55161532 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
55161546 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
55161561 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
55161577 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
55161592 ATA
1 ATA
55161595 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:55164556 original size:43 final size:42
Alignment explanation
Indices: 55164495--55164661 Score: 154
Period size: 43 Copynumber: 3.7 Consensus size: 42
55164485 TGTAACCCGC
55164495 CCATAAGTGAACTCGGACTCAACTCAACGAGCTGGGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTGGGTT-GCAT
* * * *
55164538 CCATAAGTGAAATCGGACTCAACTGAACGAGCTCGGATGCCTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTGGGTTG-C-A--T
* *** * *
55164584 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCT-GG---GTTGCAT
55164631 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
55164662 TTCGGATGCC
Statistics
Matches: 97, Mismatches: 18, Indels: 15
0.75 0.14 0.12
Matches are distributed among these distances:
42 1 0.01
43 35 0.36
44 1 0.01
46 28 0.29
47 27 0.28
48 1 0.01
49 1 0.01
50 1 0.01
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.22
Consensus pattern (42 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTGGGTTGCAT
Found at i:55164660 original size:93 final size:90
Alignment explanation
Indices: 55164503--55164671 Score: 257
Period size: 93 Copynumber: 1.8 Consensus size: 90
55164493 GCCCATAAGT
* *
55164503 GAACTCGGACTCAACTCAACGAGCTGGGTTCGCATCCATAAGTGAAATCGGACTCAACTGAACGA
1 GAACTCGGACTCAACTCAACGAGCTGGATTCGCATCCATAAGTGAAATCGGACTCAACTCAACGA
55164568 GCTCGGATGCCTAGTTACATCTCTC
66 GCTCGGATGCCTAGTTACATCTCTC
* * *
55164593 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCT-GG--ATTCGCATCCATAAGTGAAATCGGACTCAACTCAA
*
55164658 CGAGTTCGGATGCC
63 CGAGCTCGGATGCC
55164672 CAAACATCCT
Statistics
Matches: 70, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
90 24 0.34
91 2 0.03
93 44 0.63
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (90 bp):
GAACTCGGACTCAACTCAACGAGCTGGATTCGCATCCATAAGTGAAATCGGACTCAACTCAACGA
GCTCGGATGCCTAGTTACATCTCTC
Found at i:55167871 original size:49 final size:49
Alignment explanation
Indices: 55167659--55167890 Score: 293
Period size: 49 Copynumber: 4.7 Consensus size: 49
55167649 CTAGTACGCA
* *
55167659 TAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
* * * * *
55167708 TAGTAGCCTGCACTTAGTACTAAACACGTGACCTAATCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCCGGTACACG
* * * * * *
55167758 TAGTAGCCTACACTTAGTACTACAAACGTGATCAAAGTTATCGGGTACACA
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCCGGTACACG
* *
55167809 TAGTAGCCCGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
*
55167858 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC
55167891 TCACAATAGA
Statistics
Matches: 154, Mismatches: 26, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
49 71 0.46
50 46 0.30
51 37 0.24
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
Found at i:55167887 original size:100 final size:99
Alignment explanation
Indices: 55167659--55167889 Score: 311
Period size: 100 Copynumber: 2.3 Consensus size: 99
55167649 CTAGTACGCA
* * * * *
55167659 TAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTACACTTAGTACTACACACGTGACAAATTATCCGGTACACATAGTAGCCCGCACTTA
* *
55167724 GTACTAAACACGTGACCTAATCATCTGATACACG
66 GTACTAAACACGCGACCTAATCATCCGATACACG
* *
55167758 TAGTAGCCTACACTTAGTACTACAAACGTGATCAAAGTTATCGGGTACACATAGTAGCCCGCACT
1 TAGTAGCCTACACTTAGTACTACACACGTGA-CAAA-TTATCCGGTACACATAGTAGCCCGCACT
* * * *
55167823 TAGTACTACACATGCGACC-AATTATCCGGTACACG
64 TAGTACTAAACACGCGACCTAATCATCCGATACACG
*
55167858 TAGTAGCCTGCACTTAGTACTACACACGTGAC
1 TAGTAGCCTACACTTAGTACTACACACGTGAC
55167890 CTCACAATAG
Statistics
Matches: 115, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
99 29 0.25
100 45 0.39
101 41 0.36
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTACACTTAGTACTACACACGTGACAAATTATCCGGTACACATAGTAGCCCGCACTTA
GTACTAAACACGCGACCTAATCATCCGATACACG
Found at i:55170697 original size:46 final size:46
Alignment explanation
Indices: 55170534--55170706 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
55170524 TGGTTGGCAT
*
55170534 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-A-GT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
55170578 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
55170623 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
55170671 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
55170707 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 8, Indels: 20
0.80 0.06 0.14
Matches are distributed among these distances:
41 5 0.05
43 2 0.02
44 28 0.25
45 1 0.01
46 35 0.32
47 28 0.25
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:55173669 original size:15 final size:15
Alignment explanation
Indices: 55173630--55173708 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
55173620 GTATCTTGGG
*
55173630 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
55173645 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
55173660 TTTCTTTATTC-GGG
1 TTTCTTTATTCTGGA
*
55173674 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
55173689 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
55173703 TTTCTT
1 TTTCTT
55173709 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
13 2 0.04
14 17 0.32
15 32 0.60
16 2 0.04
ACGTcount: A:0.10, C:0.18, G:0.14, T:0.58
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:55173693 original size:29 final size:29
Alignment explanation
Indices: 55173621--55173707 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
55173611 CATAGTATCG
* * * *
55173621 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTC-GGATTTCTC
*
55173651 TAT-TCTGGATTTCTTTATTCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCGGATTTCTC
*
55173680 TATCTTGGATTTCTTTATTCGGTTTTCT
1 TATCTTGGATTTCTTTATTCGGATTTCT
55173708 TGTTATCTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 32 0.65
30 17 0.35
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.56
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATTCGGATTTCTC
Found at i:55176140 original size:46 final size:46
Alignment explanation
Indices: 55176090--55176265 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
55176080 TGGTTGAGCA
55176090 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
55176136 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
55176181 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
55176229 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
55176266 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:55176246 original size:93 final size:93
Alignment explanation
Indices: 55176087--55176257 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
55176077 GGATGGTTGA
* *
55176087 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
55176152 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
55176180 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
55176245 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
55176258 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:55180444 original size:42 final size:42
Alignment explanation
Indices: 55180316--55180545 Score: 168
Period size: 42 Copynumber: 5.5 Consensus size: 42
55180306 CATCTGTCTG
* * * * *
55180316 AGATATCGTGTAAGACCGTGTCTGAGACACAAG--TC-T-TG
1 AGATTTCGTGTAAGACCATGTCTGGGACATAAGCATCGTATT
* * * **
55180354 AGATTTACGTATAAGACCATGTATGGCACATCGGCATCGTATT
1 AGATTT-CGTGTAAGACCATGTCTGGGACATAAGCATCGTATT
* * *
55180397 TGATTTCGTGTAAGACCGTGTCTGGGACATAAGCCTCG-ATT
1 AGATTTCGTGTAAGACCATGTCTGGGACATAAGCATCGTATT
**
55180438 AAGATTTACGTGTAAGACCATGTCTGGGACATCGGCATCGTATCT
1 -AGATTT-CGTGTAAGACCATGTCTGGGACATAAGCATCGTAT-T
* * * *
55180483 -GATTTCGTGTAAGACCCTATCTGGGACAGAGGCATCGATATT
1 AGATTTCGTGTAAGACCATGTCTGGGACATAAGCATCG-TATT
* *
55180525 -GAATTACATGTAAGACCATGT
1 AG-ATTTCGTGTAAGACCATGT
55180546 TCGGGATGTC
Statistics
Matches: 150, Mismatches: 31, Indels: 17
0.76 0.16 0.09
Matches are distributed among these distances:
38 5 0.03
39 19 0.13
41 5 0.03
42 61 0.41
43 57 0.38
44 2 0.01
45 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (42 bp):
AGATTTCGTGTAAGACCATGTCTGGGACATAAGCATCGTATT
Found at i:55180460 original size:85 final size:84
Alignment explanation
Indices: 55180321--55180545 Score: 269
Period size: 85 Copynumber: 2.7 Consensus size: 84
55180311 GTCTGAGATA
* * *
55180321 TCGTGTAAGACCGTGTCTGAGACACAAG-TC--TTGAGATTTACGTATAAGACCATGTATGGCAC
1 TCGTGTAAGACCGTGTCTGGGACACAAGCTCGATTAAGATTTACGTGTAAGACCATGTATGGCAC
*
55180383 ATCGGCATCGTATTTGATT
66 ATCGGCATCGTATCTGATT
* * *
55180402 TCGTGTAAGACCGTGTCTGGGACATAAGCCTCGATTAAGATTTACGTGTAAGACCATGTCTGGGA
1 TCGTGTAAGACCGTGTCTGGGACACAAG-CTCGATTAAGATTTACGTGTAAGACCATGTATGGCA
55180467 CATCGGCATCGTATCTGATT
65 CATCGGCATCGTATCTGATT
* * * * * * *
55180487 TCGTGTAAGACCCTATCTGGGACAGAGGCATCGA-TATTGAATTACATGTAAGACCATGT
1 TCGTGTAAGACCGTGTCTGGGACACAAGC-TCGATTA-AGATTTACGTGTAAGACCATGT
55180546 TCGGGATGTC
Statistics
Matches: 124, Mismatches: 14, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
81 26 0.21
83 2 0.02
84 3 0.02
85 93 0.75
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.29
Consensus pattern (84 bp):
TCGTGTAAGACCGTGTCTGGGACACAAGCTCGATTAAGATTTACGTGTAAGACCATGTATGGCAC
ATCGGCATCGTATCTGATT
Found at i:55187452 original size:42 final size:41
Alignment explanation
Indices: 55187363--55187478 Score: 110
Period size: 42 Copynumber: 2.8 Consensus size: 41
55187353 CTTACATGGG
* *
55187363 ATCTCATATCGATGCCAATAGT-CCAG-CTATTGTCTTACACGA
1 ATCTCATATCGATGCC-AT-GTCCCAGAC-ATGGTCTTACACAA
* *
55187405 TTCTCATATTGATGCCATGTCCCAGACATGGTCTTACACAAA
1 ATCTCATATCGATGCCATGTCCCAGACATGGTCTTACAC-AA
* * * *
55187447 ATCTCATAACGATGTCATATCCCAGATATGGT
1 ATCTCATATCGATGCCATGTCCCAGACATGGT
55187479 ACTAAACGTA
Statistics
Matches: 61, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
40 2 0.03
41 17 0.28
42 42 0.69
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (41 bp):
ATCTCATATCGATGCCATGTCCCAGACATGGTCTTACACAA
Found at i:55192176 original size:5 final size:5
Alignment explanation
Indices: 55192168--55192208 Score: 52
Period size: 5 Copynumber: 8.8 Consensus size: 5
55192158 TATAAAGTAA
*
55192168 ATTAT ATTAT ATTAT ATTAT A-TA- ATTAT AATAT ATTA- ATTA
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTA
55192209 AATAAAGAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
3 1 0.03
4 8 0.25
5 23 0.72
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (5 bp):
ATTAT
Found at i:55192178 original size:17 final size:18
Alignment explanation
Indices: 55192137--55192179 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
55192127 TGTATTTACT
55192137 TATTATATAAGTAAATAA
1 TATTATATAAGTAAATAA
* *
55192155 TAATATA-AAGTAAATTA
1 TATTATATAAGTAAATAA
55192172 TATTATAT
1 TATTATAT
55192180 TATATTATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (18 bp):
TATTATATAAGTAAATAA
Found at i:55192869 original size:34 final size:34
Alignment explanation
Indices: 55192831--55192898 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
55192821 AGGAGAAAGT
*
55192831 GAACGAGGATATTGAGTAAACTCGAGAACTACGG
1 GAACGAGGATATCGAGTAAACTCGAGAACTACGG
* *
55192865 GAACGAGGATATCGAGTAAACTTGAGAATTACGG
1 GAACGAGGATATCGAGTAAACTCGAGAACTACGG
55192899 TTTGTATTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.38, C:0.13, G:0.29, T:0.19
Consensus pattern (34 bp):
GAACGAGGATATCGAGTAAACTCGAGAACTACGG
Found at i:55195944 original size:30 final size:29
Alignment explanation
Indices: 55195889--55196019 Score: 149
Period size: 30 Copynumber: 4.5 Consensus size: 29
55195879 ATAGTGAATC
*
55195889 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAACT
*
55195918 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAACT
*
55195948 CGCACACTTAGTGCTATATA--GTCAAACT
1 CGCACACTTAGTGCTATATATTTTC-AACT
* * * * *
55195976 CGCACACCTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATA-TATTTTCAACT
55196006 CGCACACTTAGTGC
1 CGCACACTTAGTGC
55196020 CAATCTTGTC
Statistics
Matches: 88, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
27 2 0.02
28 19 0.22
29 21 0.24
30 45 0.51
31 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAACT
Found at i:55195999 original size:58 final size:58
Alignment explanation
Indices: 55195888--55196019 Score: 167
Period size: 58 Copynumber: 2.3 Consensus size: 58
55195878 TATAGTGAAT
* * * * * *
55195888 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TGTCAACTCGCACACCTAGTGCTATACAATTTTAAAC
* *
55195947 TCGCACACTTAGTGCTATATA-GTCAAACTCGCACACCTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATGTC-AACTCGCACACCTAGTGCTATACAATTTTAAAC
55196005 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
55196020 CAATCTTGTC
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.65
59 20 0.32
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.31
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATGTCAACTCGCACACCTAGTGCTATACAATTTTAAAC
Found at i:55203894 original size:30 final size:30
Alignment explanation
Indices: 55203839--55203969 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
55203829 ATAGTGAATC
*
55203839 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
55203868 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
55203898 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
55203926 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
55203956 CGCACACTTAGTGC
1 CGCACACTTAGTGC
55203970 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:55203949 original size:58 final size:58
Alignment explanation
Indices: 55203838--55203969 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
55203828 TATAGTGAAT
* * * * *
55203838 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
55203897 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
55203955 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
55203970 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:55207365 original size:29 final size:29
Alignment explanation
Indices: 55207332--55207405 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
55207322 GTGACGAGAT
55207332 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
55207361 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
55207390 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
55207406 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:55207421 original size:29 final size:29
Alignment explanation
Indices: 55207389--55207464 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
55207379 CTGGAAATAT
* *
55207389 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
55207418 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
55207447 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
55207465 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:55207432 original size:58 final size:58
Alignment explanation
Indices: 55207332--55207464 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
55207322 GTGACGAGAT
* * * * * *
55207332 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
55207390 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
55207448 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
55207465 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:55209695 original size:54 final size:53
Alignment explanation
Indices: 55209520--55209708 Score: 202
Period size: 54 Copynumber: 3.5 Consensus size: 53
55209510 CATGTCTTCA
* * * * * *
55209520 CATGGTCTTACGTGGTATCCTTGCCTTAT-GAAATCACCAATGCCATACCTTGG
1 CATGGTCTTACATGATATCCTTACCTTATAG-AATTATCAATGCCATGCCTTGG
*** * * *
55209573 CATGGTCTTACATG-GGCCCTTGCCTTATAGTAATTCATCAATGCCATGTCTTGA
1 CATGGTCTTACATGATATCCTTACCTTATAG-AATT-ATCAATGCCATGCCTTGG
*
55209627 CATGGTCTTACATGATTTCCTTACCTTATAGAACTTATCAATGCCATGCCTTGG
1 CATGGTCTTACATGATATCCTTACCTTATAGAA-TTATCAATGCCATGCCTTGG
*
55209681 CATGGTCTTACATGATATCCTTATCTTA
1 CATGGTCTTACATGATATCCTTACCTTA
55209709 CCATGCCATG
Statistics
Matches: 114, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
52 11 0.10
53 17 0.15
54 72 0.63
55 14 0.12
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.36
Consensus pattern (53 bp):
CATGGTCTTACATGATATCCTTACCTTATAGAATTATCAATGCCATGCCTTGG
Found at i:55209784 original size:46 final size:45
Alignment explanation
Indices: 55209681--55209799 Score: 195
Period size: 46 Copynumber: 2.6 Consensus size: 45
55209671 CATGCCTTGG
* *
55209681 CATGGTCTTACATGATATCCTTATCTTACCATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCATGCCATGTTCCAAA
55209726 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCC-AA
1 CATGGTCTTACATGGTATCCTTGTCTTACC--ATGCCATGTTCCAAA
55209772 CATGGTCTTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
55209800 GTGCCAATGC
Statistics
Matches: 70, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
45 28 0.40
46 30 0.43
47 12 0.17
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.37
Consensus pattern (45 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCATGCCATGTTCCAAA
Found at i:55209933 original size:91 final size:92
Alignment explanation
Indices: 55209666--55209934 Score: 253
Period size: 91 Copynumber: 2.9 Consensus size: 92
55209656 AGAACTTATC
* * * * ***
55209666 AATGCCATGCCTTGGCATGGTCTTACATGATATCCTTATCTTACC-ATGCCATGTTCCAAACATG
1 AATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGTCTTACCAATGCCATG-TCTTGACATG
* *
55209730 GTCTTACATGGTATCCTT-GTCTTACCA
65 GTCTTACATGGTATCCTTAATCATACCA
** ** *
55209757 AATGCCATGT-TCCAACATGGTCTTACATGGTATCCTTGTCTTAGTGCCAATGCCACATCTTGAT
1 AATGCCATGTCT-TGACATGGTCTTACATGGTATCCTTGTCTTA---CCAATGCCATGTCTTGAC
* *
55209821 GTGGTCTTACATGG-AGTCCTTAATCA-ATGC-
62 ATGGTCTTACATGGTA-TCCTTAATCATA-CCA
* * * *
55209851 GATGCCATGTCTTGACATGGTCTTACACGGGATCCTTGCCTTACCAATGCCATGTCTTGACATGG
1 AATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGTCTTACCAATGCCATGTCTTGACATGG
55209916 TCTTACATGGTATCCTTAA
66 TCTTACATGGTATCCTTAA
55209935 CCGTCAATTC
Statistics
Matches: 142, Mismatches: 26, Indels: 20
0.76 0.14 0.11
Matches are distributed among these distances:
90 1 0.01
91 70 0.49
92 1 0.01
93 1 0.01
94 59 0.42
95 10 0.07
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (92 bp):
AATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGTCTTACCAATGCCATGTCTTGACATGG
TCTTACATGGTATCCTTAATCATACCA
Found at i:55209999 original size:41 final size:41
Alignment explanation
Indices: 55209939--55210018 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 41
55209929 CCTTAACCGT
* *
55209939 CAATTCCTCCTTAAATGCCATGTTATGAA-CATGGACTTTTC
1 CAATTCCTCCTTAAATGCCATGGTA-CAACCATGGACTTTTC
* *
55209980 CAATTCTTCCTTAATTGCCATGGTACAACCATGGACTTT
1 CAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTT
55210019 GAGATATCAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 2 0.06
41 32 0.94
ACGTcount: A:0.26, C:0.25, G:0.12, T:0.36
Consensus pattern (41 bp):
CAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTTTC
Found at i:55210585 original size:29 final size:29
Alignment explanation
Indices: 55210552--55210610 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
55210542 TCCCTAACTC
55210552 AAACTTTGA-AAAATTACAATTTTTCCCCT
1 AAACTTT-ATAAAATTACAATTTTTCCCCT
* *
55210581 AAACTTTATAGAATTACGATTTTTCCCCT
1 AAACTTTATAAAATTACAATTTTTCCCCT
55210610 A
1 A
55210611 GGCTCTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
28 1 0.04
29 26 0.96
ACGTcount: A:0.36, C:0.20, G:0.05, T:0.39
Consensus pattern (29 bp):
AAACTTTATAAAATTACAATTTTTCCCCT
Found at i:55220430 original size:28 final size:29
Alignment explanation
Indices: 55220360--55220440 Score: 146
Period size: 29 Copynumber: 2.8 Consensus size: 29
55220350 TTATTTTTTT
55220360 TTTCCAGCATGCACACTTAGTGCCATATA
1 TTTCCAGCATGCACACTTAGTGCCATATA
55220389 TTTCCAGCATGCACACTTAGTGCCATATA
1 TTTCCAGCATGCACACTTAGTGCCATATA
*
55220418 -TTCCAGCACGCACACTTAGTGCC
1 TTTCCAGCATGCACACTTAGTGCC
55220441 TATCTCGTCA
Statistics
Matches: 51, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
28 22 0.43
29 29 0.57
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.28
Consensus pattern (29 bp):
TTTCCAGCATGCACACTTAGTGCCATATA
Found at i:55230076 original size:55 final size:54
Alignment explanation
Indices: 55229960--55230133 Score: 158
Period size: 55 Copynumber: 3.2 Consensus size: 54
55229950 CATGTCTTAA
* * * * * *
55229960 CATGGTCTTACGTGA-TATCCTTGCCTTAT-GAACTCACCAATTG-CATACCTTGG
1 CATGGTCTTACATGAGGA-CCTTACCTTATAAAACTCATCAA-TGCCATGCCTTGG
** * * *
55230013 CATGGTCTTACATG-GGACCTTTGTCTTATAGTAACTCATCAATGCCATGTCTTGA
1 CATGGTCTTACATGAGGACC-TTACCTTATA-AAACTCATCAATGCCATGCCTTGG
** *
55230068 CATGGTCTTACATGATTACCTTACCTTATAAAACTTATCAATGCCATGCCTTGG
1 CATGGTCTTACATGAGGACCTTACCTTATAAAACTCATCAATGCCATGCCTTGG
55230122 CATGGTCTTACA
1 CATGGTCTTACA
55230134 AGATATCCTT
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
52 2 0.02
53 22 0.22
54 34 0.34
55 38 0.38
56 3 0.03
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (54 bp):
CATGGTCTTACATGAGGACCTTACCTTATAAAACTCATCAATGCCATGCCTTGG
Found at i:55230129 original size:54 final size:53
Alignment explanation
Indices: 55229960--55230143 Score: 183
Period size: 54 Copynumber: 3.4 Consensus size: 53
55229950 CATGTCTTAA
* * * *
55229960 CATGGTCTTACGTGATATCCTTGCCTTAT-GAACTCACCAATTG-CATACCTTGG
1 CATGGTCTTACATGATA-CCTTGCCTTATAAAACTCATCAA-TGCCATGCCTTGG
** * * * *
55230013 CATGGTCTTACATGGGACCTTTGTCTTATAGTAACTCATCAATGCCATGTCTTGA
1 CATGGTCTTACATGATACC-TTGCCTTATA-AAACTCATCAATGCCATGCCTTGG
* *
55230068 CATGGTCTTACATGATTACCTTACCTTATAAAACTTATCAATGCCATGCCTTGG
1 CATGGTCTTACATGA-TACCTTGCCTTATAAAACTCATCAATGCCATGCCTTGG
*
55230122 CATGGTCTTACAAGATATCCTT
1 CATGGTCTTACATGATA-CCTT
55230144 ATCTTACCAT
Statistics
Matches: 107, Mismatches: 18, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
52 2 0.02
53 24 0.22
54 40 0.37
55 38 0.36
56 3 0.03
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (53 bp):
CATGGTCTTACATGATACCTTGCCTTATAAAACTCATCAATGCCATGCCTTGG
Found at i:55230174 original size:45 final size:46
Alignment explanation
Indices: 55230122--55230221 Score: 139
Period size: 45 Copynumber: 2.2 Consensus size: 46
55230112 CATGCCTTGG
55230122 CATGGTCTTACAAGATATCCTTATCTTACC-ATGCCATGTTCCAAA
1 CATGGTCTTACAAGATATCCTTATCTTACCAATGCCATGTTCCAAA
* * * * *
55230167 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTTCAGA
1 CATGGTCTTACAAGATATCCTTATCTTACC-AATGCCATGTTCCAAA
55230214 CATGGTCT
1 CATGGTCT
55230222 ACCATGGTAT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
45 27 0.56
47 21 0.44
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (46 bp):
CATGGTCTTACAAGATATCCTTATCTTACCAATGCCATGTTCCAAA
Found at i:55230221 original size:47 final size:45
Alignment explanation
Indices: 55230122--55230241 Score: 161
Period size: 47 Copynumber: 2.6 Consensus size: 45
55230112 CATGCCTTGG
* * *
55230122 CATGGTCTTACAAGATATCCTTATCTTACCATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCATGCCATGTTCCAAA
* *
55230167 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTTCAGA
1 CATGGTCTTACATGGTATCCTTGTCTTACC--ATGCCATGTTCCAAA
55230214 CATGGTC-TACCATGGTATCCTTGTCTTA
1 CATGGTCTTA-CATGGTATCCTTGTCTTA
55230242 GTGCCAATGC
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
45 27 0.40
46 2 0.03
47 38 0.57
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.36
Consensus pattern (45 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCATGCCATGTTCCAAA
Found at i:55230427 original size:47 final size:47
Alignment explanation
Indices: 55230368--55230489 Score: 174
Period size: 47 Copynumber: 2.6 Consensus size: 47
55230358 CATGCCTTGG
* *
55230368 CATGGTCTTACATGATATCCTTATCTTATCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGATATCCTTGTCTTACCAAATGCCATGTTCCAAA
* * * *
55230415 CATGGTCTTACATGGTATCTTTGTTTTACCAAATGTCATGTTCCAAA
1 CATGGTCTTACATGATATCCTTGTCTTACCAAATGCCATGTTCCAAA
55230462 CATGGTCTTACAT-AGTATCCTTGTCTTA
1 CATGGTCTTACATGA-TATCCTTGTCTTA
55230490 GTGCTAATGC
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
47 65 1.00
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.39
Consensus pattern (47 bp):
CATGGTCTTACATGATATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:55230467 original size:248 final size:246
Alignment explanation
Indices: 55230092--55230575 Score: 792
Period size: 248 Copynumber: 2.0 Consensus size: 246
55230082 ATTACCTTAC
*
55230092 CTTATAAAACTTATCAATGCCATGCCTTGGCATGGTCTTACAAGATATCCTTATCTTACCATGCC
1 CTTATAAAACTTATCAATGCCATGCCTTGGCATGGTCTTACAAGATATCCTTATCTTACAATGCC
* *
55230157 ATGTTCCAAACATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTTCAGACATGGTC-
66 ATGTTCCAAACATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAACATGGTCT
* *
55230221 TACCATGGTATCCTTGTCTTAGTGCCAATGCCACATTTTGATGCGGTCTTACATGGAGTCCCT-A
131 TA-CATAGTATCCTTGTCTTAGTGCCAATGCCACATCTTGATGCGGTCTTACATGGAGT-CCTAA
*
55230285 ATCAATGCTGATGCCATGTCTTGACATGGTCTTACACGGGATCTTGACATGGT
194 ATCAATGCCGATGCCATGTCTTGACATGGTCTTACACGGGATCTTGACATGGT
* *
55230338 CTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTATCTTATCAAATG
1 CTTATAAAACTTATCAATGCCATGCCTTGGCATGGTCTTACAAGATATCCTTATCTTA-C-AATG
* * *
55230403 CCATGTTCCAAACATGGTCTTACATGGTATCTTTGTTTTACCAAATGTCATGTTCCAAACATGGT
64 CCATGTTCCAAACATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAACATGGT
* * *
55230468 CTTACATAGTATCCTTGTCTTAGTGCTAATGCCACATCTTGATGTGGTCTTACGTGGAGTCCTAA
129 CTTACATAGTATCCTTGTCTTAGTGCCAATGCCACATCTTGATGCGGTCTTACATGGAGTCCTAA
55230533 ATCAATGCCGATGCCATGTCTTGACATGGTCTTACACGGGATC
194 ATCAATGCCGATGCCATGTCTTGACATGGTCTTACACGGGATC
55230576 CTTGCCTTAC
Statistics
Matches: 220, Mismatches: 14, Indels: 6
0.92 0.06 0.03
Matches are distributed among these distances:
246 56 0.25
247 4 0.02
248 158 0.72
249 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.35
Consensus pattern (246 bp):
CTTATAAAACTTATCAATGCCATGCCTTGGCATGGTCTTACAAGATATCCTTATCTTACAATGCC
ATGTTCCAAACATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAACATGGTCT
TACATAGTATCCTTGTCTTAGTGCCAATGCCACATCTTGATGCGGTCTTACATGGAGTCCTAAAT
CAATGCCGATGCCATGTCTTGACATGGTCTTACACGGGATCTTGACATGGT
Found at i:55243058 original size:49 final size:48
Alignment explanation
Indices: 55242998--55243251 Score: 354
Period size: 47 Copynumber: 5.3 Consensus size: 48
55242988 GTATGAGATA
55242998 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG-GTG
*
55243047 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG-GTG
55243096 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAGGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGGTG
* * *
55243143 TATATATGTAATAAGGCCGAATGGCCAATGTGATGAATGTGAAA-GTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGGTG
* * * * * *
55243190 TATATATGTGAT-AGTGCCGAGTGGCCAACGTGATGGATGTGGAA-GTG
1 TATATATGTGATAAG-GCCTAATGGCCGATGTGATGAATGTGAAAGGTG
*
55243237 TATAAATGTGATAAG
1 TATATATGTGATAAG
55243252 TCCCGAAGGG
Statistics
Matches: 191, Mismatches: 11, Indels: 7
0.91 0.05 0.03
Matches are distributed among these distances:
46 2 0.01
47 93 0.49
48 7 0.04
49 89 0.47
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (48 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGGTG
Found at i:55246967 original size:30 final size:30
Alignment explanation
Indices: 55246931--55246991 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
55246921 TCCTTAACTC
55246931 AAACTTTGGAAAATTTACAATTTTGCCCCT
1 AAACTTTGGAAAATTTACAATTTTGCCCCT
* * * * *
55246961 AAACTTTTGCATATTTACACTTTTTCCCCT
1 AAACTTTGGAAAATTTACAATTTTGCCCCT
55246991 A
1 A
55246992 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.41
Consensus pattern (30 bp):
AAACTTTGGAAAATTTACAATTTTGCCCCT
Found at i:55249027 original size:26 final size:29
Alignment explanation
Indices: 55248960--55249038 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
55248950 GTTATGGTGA
55248960 ATAAAATTTGTAAAAATTGTCCATTGATG
1 ATAAAATTTGTAAAAATTGTCCATTGATG
55248989 ATAAAATTTGTAAAAATTGTCCATTG-T-
1 ATAAAATTTGTAAAAATTGTCCATTGATG
55249016 A-AAAATTTGTAAAAATTGTCCAT
1 ATAAAATTTGTAAAAATTGTCCAT
55249039 GTTATGTTGT
Statistics
Matches: 50, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
26 22 0.44
27 1 0.02
28 1 0.02
29 26 0.52
ACGTcount: A:0.43, C:0.08, G:0.11, T:0.38
Consensus pattern (29 bp):
ATAAAATTTGTAAAAATTGTCCATTGATG
Found at i:55251841 original size:43 final size:42
Alignment explanation
Indices: 55251734--55251885 Score: 121
Period size: 43 Copynumber: 3.5 Consensus size: 42
55251724 CCAACATCCT
* * * * *
55251734 AGACGTGGTCTTACATGTAATCAAATATAGATGCC-ACTATCCC
1 AGACATGGTCTTACACGAAATCAAATA-CGATGCCGA-TGTCCC
* * * *
55251777 AAAAAGGGTCTTACACGAAATCAAATACGATGCCGATGTCCT
1 AGACATGGTCTTACACGAAATCAAATACGATGCCGATGTCCC
* *
55251819 AGACATGGTCTTACACGTAAATCTCAAAT-CGATG-CGAACGACCC
1 AGACATGGTCTTACACG-AAA--TCAAATACGATGCCG-ATGTCCC
*
55251863 AGACATGGTCTTACATGAAATCA
1 AGACATGGTCTTACACGAAATCA
55251886 CATATCGAAA
Statistics
Matches: 88, Mismatches: 16, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
41 3 0.03
42 24 0.27
43 30 0.34
44 25 0.28
45 6 0.07
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.24
Consensus pattern (42 bp):
AGACATGGTCTTACACGAAATCAAATACGATGCCGATGTCCC
Found at i:55254160 original size:28 final size:28
Alignment explanation
Indices: 55254139--55254212 Score: 107
Period size: 27 Copynumber: 2.7 Consensus size: 28
55254129 CCCTAATTTA
55254139 GTAAAATGAATGTTATACCCCT-ATGAG
1 GTAAAATGAATGTTATACCCCTAATGAG
*
55254166 GTAAAATGACTGTTATACCCCT-ATGAG
1 GTAAAATGAATGTTATACCCCTAATGAG
* *
55254193 GTAAAATGACTGATATACCC
1 GTAAAATGAATGTTATACCC
55254213 TTATGATATG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (28 bp):
GTAAAATGAATGTTATACCCCTAATGAG
Found at i:55260229 original size:27 final size:27
Alignment explanation
Indices: 55260191--55260271 Score: 126
Period size: 28 Copynumber: 3.0 Consensus size: 27
55260181 CCCTAATTTA
*
55260191 GTAAAATGACTGTTATACCACTATGAG
1 GTAAAATGACTGTTATACCCCTATGAG
*
55260218 GTAAAATGACTGTTATACCCCTTATAAG
1 GTAAAATGACTGTTATACCCC-TATGAG
*
55260246 GTAAAATGACTGATATACCCCTATGA
1 GTAAAATGACTGTTATACCCCTATGA
55260272 TATGCATGAC
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
27 24 0.49
28 25 0.51
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.30
Consensus pattern (27 bp):
GTAAAATGACTGTTATACCCCTATGAG
Found at i:55271627 original size:2 final size:2
Alignment explanation
Indices: 55271620--55271703 Score: 143
Period size: 2 Copynumber: 42.5 Consensus size: 2
55271610 TTTGGTATCT
*
55271620 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
55271662 TA TA TA TA T- TA TA TA TA TA TA TA TT TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
55271703 T
1 T
55271704 GTGTGTGTGT
Statistics
Matches: 77, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
1 1 0.01
2 76 0.99
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:55272641 original size:10 final size:11
Alignment explanation
Indices: 55272628--55272673 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
55272618 TCCTTTCATG
55272628 TTTATTTT-TT
1 TTTATTTTGTT
*
55272638 TTTATTTT-TAG
1 TTTATTTTGT-T
55272649 TTTATTTTAGTT
1 TTTATTTT-GTT
55272661 TTTATTTTGTT
1 TTTATTTTGTT
55272672 TT
1 TT
55272674 CGGGTAGTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
10 9 0.29
11 13 0.42
12 8 0.26
13 1 0.03
ACGTcount: A:0.13, C:0.00, G:0.07, T:0.80
Consensus pattern (11 bp):
TTTATTTTGTT
Found at i:55272672 original size:21 final size:20
Alignment explanation
Indices: 55272626--55272672 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 20
55272616 TTTCCTTTCA
55272626 TGTTTATTTTTTTTTATTTT
1 TGTTTATTTTTTTTTATTTT
55272646 TAGTTTATTTTAGTTTTTA-TTT
1 T-GTTTATTTT--TTTTTATTTT
55272668 TGTTT
1 TGTTT
55272673 TCGGGTAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
20 1 0.04
21 13 0.54
22 4 0.17
23 6 0.25
ACGTcount: A:0.13, C:0.00, G:0.09, T:0.79
Consensus pattern (20 bp):
TGTTTATTTTTTTTTATTTT
Found at i:55274811 original size:16 final size:16
Alignment explanation
Indices: 55274792--55274822 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
55274782 CTTCTTCACT
55274792 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
55274808 TACTTACTTACTTAA
1 TACTCACTTACTTAA
55274823 TCAAATTTAT
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:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:55274828 original size:20 final size:20
Alignment explanation
Indices: 55274789--55274828 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
55274779 AAACTTCTTC
* *
55274789 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
55274809 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
55274829 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:55276404 original size:28 final size:29
Alignment explanation
Indices: 55276372--55276470 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
55276362 ATAATAAGCC
*
55276372 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
55276400 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * *
55276428 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
55276457 CGCACACTTAGTGC
1 CGCACACTTAGTGC
55276471 CAATCTCATG
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
27 2 0.03
28 37 0.61
29 19 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:55284410 original size:28 final size:29
Alignment explanation
Indices: 55284378--55284476 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
55284368 ATAATAAGCC
*
55284378 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
55284406 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * *
55284434 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
55284463 CGCACACTTAGTGC
1 CGCACACTTAGTGC
55284477 CAATCTCATG
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
27 2 0.03
28 37 0.61
29 19 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:55287593 original size:28 final size:29
Alignment explanation
Indices: 55287561--55287659 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
55287551 ATAATAAGCC
*
55287561 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
55287589 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * *
55287617 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
55287646 CGCACACTTAGTGC
1 CGCACACTTAGTGC
55287660 CAATCTCATG
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
27 2 0.03
28 37 0.61
29 19 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:55295602 original size:28 final size:29
Alignment explanation
Indices: 55295570--55295668 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
55295560 ATAATAAGCC
*
55295570 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
55295598 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * *
55295626 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
55295655 CGCACACTTAGTGC
1 CGCACACTTAGTGC
55295669 CAATCTCATG
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
27 2 0.03
28 37 0.61
29 19 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:55297597 original size:108 final size:110
Alignment explanation
Indices: 55297469--55297669 Score: 284
Period size: 108 Copynumber: 1.8 Consensus size: 110
55297459 ATCCTTTTGA
* * * *
55297469 AACTTACCATTGCCATGTCTTGACATTGTCTTACATGGTGTCCTTGCCTTATG-AA-CTCT-CTA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATGTCCTTGCCTTA-GAAACCT-TACCA
*
55297531 A-TGCCATGCCTTAGCATGGTCTTACATGGGACCTTTGCCTTATAGT
64 ATTGCAATGCCTTAGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* *
55297577 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATGTCCTTGCCTTAGAAACCTTACCAAT
*
55297642 TGCAATGCCTTGGCATGGTCTTACATGG
66 TGCAATGCCTTAGCATGGTCTTACATGG
55297670 TATCCTTAAA
Statistics
Matches: 81, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
107 1 0.01
108 49 0.60
109 5 0.06
110 26 0.32
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.36
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATGTCCTTGCCTTAGAAACCTTACCAAT
TGCAATGCCTTAGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:55297676 original size:55 final size:53
Alignment explanation
Indices: 55297443--55297676 Score: 214
Period size: 55 Copynumber: 4.4 Consensus size: 53
55297433 CATCACTTTT
* * *
55297443 CATGGTCTTACGTGGTATCCTT---TT-GAAACTTACCATTGCCATGTCTTGA
1 CATGGTCTTACATGGTATCCTTGCCTTAGAAACTTACCAATGCCATGCCTTGA
* * *
55297492 CATTGTCTTACATGGTGTCCTTGCCTTATG-AACTCT-CTAATGCCATGCCTT-A
1 CATGGTCTTACATGGTATCCTTGCCTTA-GAAACT-TACCAATGCCATGCCTTGA
* * * *
55297544 GCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTTATCAATGCCATGTCTTGA
1 -CATGGTCTTACATGGTATCC-TTGCC-T-TAGAAACTTACCAATGCCATGCCTTGA
* * * *
55297600 CATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAATTGCAATGCCTTGG
1 CATGGTCTTACATGGTATCCTTGCCTTAGAAA-CTTACCAA-TGCCATGCCTTGA
55297655 CATGGTCTTACATGGTATCCTT
1 CATGGTCTTACATGGTATCCTT
55297677 AAACCCTAAT
Statistics
Matches: 147, Mismatches: 22, Indels: 26
0.75 0.11 0.13
Matches are distributed among these distances:
49 19 0.13
52 5 0.03
53 40 0.27
54 13 0.09
55 67 0.46
56 3 0.02
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.37
Consensus pattern (53 bp):
CATGGTCTTACATGGTATCCTTGCCTTAGAAACTTACCAATGCCATGCCTTGA
Found at i:55303350 original size:48 final size:48
Alignment explanation
Indices: 55303280--55303396 Score: 189
Period size: 48 Copynumber: 2.4 Consensus size: 48
55303270 CAAGATAAAT
* *
55303280 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAA
1 ATATGTATGAGATATGTGTATGTGGTAAAGCCGAAGGGCTAGTGTGAA
*
55303328 ATATGTATGAGATACGTGTATGTGGTAAAGCCGAAGGGCTAGTGTGAA
1 ATATGTATGAGATATGTGTATGTGGTAAAGCCGAAGGGCTAGTGTGAA
* *
55303376 ATATGTAGGAGGTATGTGTAT
1 ATATGTATGAGATATGTGTAT
55303397 ATTGCGGCCG
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 63 1.00
ACGTcount: A:0.32, C:0.06, G:0.32, T:0.31
Consensus pattern (48 bp):
ATATGTATGAGATATGTGTATGTGGTAAAGCCGAAGGGCTAGTGTGAA
Found at i:55303642 original size:74 final size:74
Alignment explanation
Indices: 55303518--55303656 Score: 269
Period size: 74 Copynumber: 1.9 Consensus size: 74
55303508 ACATGAAACT
55303518 TGGAAATATATTCCGGGTAAGACCCGATGACTACGTGTGGAGATTATGTCCGGGTAAGACCCGAT
1 TGGAAATATATTCCGGGTAAGACCCGATGACTACGTGTGGAGATTATGTCCGGGTAAGACCCGAT
55303583 GACTAGGTG
66 GACTAGGTG
*
55303592 TGGAAATATATTCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGTAAGACCCGAT
1 TGGAAATATATTCCGGGTAAGACCCGATGACTACGTGTGGAGATTATGTCCGGGTAAGACCCGAT
55303657 AACTTCGTGT
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
74 64 1.00
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (74 bp):
TGGAAATATATTCCGGGTAAGACCCGATGACTACGTGTGGAGATTATGTCCGGGTAAGACCCGAT
GACTAGGTG
Found at i:55303674 original size:37 final size:37
Alignment explanation
Indices: 55303529--55303673 Score: 229
Period size: 37 Copynumber: 3.9 Consensus size: 37
55303519 GGAAATATAT
55303529 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
55303566 TCCGGGTAAGACCCGATGACTAGGTGTGGAAATATAT-
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGAT-TATG
*
55303603 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
55303640 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
55303674 TCATCTGAGC
Statistics
Matches: 99, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
36 2 0.02
37 94 0.95
38 3 0.03
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:55305003 original size:40 final size:40
Alignment explanation
Indices: 55304939--55305292 Score: 611
Period size: 40 Copynumber: 8.8 Consensus size: 40
55304929 AGTTAGATAC
* *
55304939 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATAT
1 CCGGGCTAGGTCCCGAAGAGCATTCGAGCTGGTGTTATAT
*
55304979 CCGAGCTAGGTCCCGAAGAGCATTCGAGCTGGTGTTATAT
1 CCGGGCTAGGTCCCGAAGAGCATTCGAGCTGGTGTTATAT
*
55305019 CCAGGCTAGGTCCCGAAGAGCATTCGAGCTGGTGTTATAT
1 CCGGGCTAGGTCCCGAAGAGCATTCGAGCTGGTGTTATAT
*
55305059 CCGGGCTAGGTCCTGAAGAGCATTCGAGCTGGTGTTATAT
1 CCGGGCTAGGTCCCGAAGAGCATTCGAGCTGGTGTTATAT
55305099 CCGGGCTAGGTCCCGAAGAGCATTCGAGCTGGTGTTATAT
1 CCGGGCTAGGTCCCGAAGAGCATTCGAGCTGGTGTTATAT
55305139 CCGGGCTAGGTCCCGAAGAGCATTCGAGCTGGTGTTATAT
1 CCGGGCTAGGTCCCGAAGAGCATTCGAGCTGGTGTTATAT
55305179 CCGGGCTAGGTCCCGAAGAGCATTCGAGCTGGTGTTATAT
1 CCGGGCTAGGTCCCGAAGAGCATTCGAGCTGGTGTTATAT
* *
55305219 CTGGGCTACGTCCCGAAGAGCATTCGAGCTGGTGTTATAT
1 CCGGGCTAGGTCCCGAAGAGCATTCGAGCTGGTGTTATAT
* *
55305259 CCGGGCTAAGTCTCGAAGAGCATTC-ATGCTGGTG
1 CCGGGCTAGGTCCCGAAGAGCATTCGA-GCTGGTG
55305293 ATGTGTATTC
Statistics
Matches: 300, Mismatches: 13, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
39 1 0.00
40 299 1.00
ACGTcount: A:0.21, C:0.22, G:0.31, T:0.26
Consensus pattern (40 bp):
CCGGGCTAGGTCCCGAAGAGCATTCGAGCTGGTGTTATAT
Found at i:55308681 original size:48 final size:48
Alignment explanation
Indices: 55308611--55308713 Score: 179
Period size: 48 Copynumber: 2.1 Consensus size: 48
55308601 CAAGATAAAT
* *
55308611 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAA
1 ATATGTATGAGATACGTATATGTGGTAAAGCCGAAGGGCTAGTGTGAA
*
55308659 ATATGTATGAGATACGTGTATGTGGTAAAGCCGAAGGGCTAGTGTGAA
1 ATATGTATGAGATACGTATATGTGGTAAAGCCGAAGGGCTAGTGTGAA
55308707 ATATGTA
1 ATATGTA
55308714 GGAGGTGTGT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 52 1.00
ACGTcount: A:0.33, C:0.07, G:0.30, T:0.30
Consensus pattern (48 bp):
ATATGTATGAGATACGTATATGTGGTAAAGCCGAAGGGCTAGTGTGAA
Found at i:55308973 original size:74 final size:74
Alignment explanation
Indices: 55308849--55309000 Score: 277
Period size: 74 Copynumber: 2.1 Consensus size: 74
55308839 ACATGAAACT
55308849 TGGAAATATATTCCGGGTAAGACCCGATGACTACGTGTGGAGATTATGTCCGGGTAAGACCCGAT
1 TGGAAATATATTCCGGGTAAGACCCGATGACTACGTGTGGAGATTATGTCCGGGTAAGACCCGAT
*
55308914 GACTACGTG
66 AACTACGTG
*
55308923 TGGAAATATATTCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGTAAGACCCGAT
1 TGGAAATATATTCCGGGTAAGACCCGATGACTACGTGTGGAGATTATGTCCGGGTAAGACCCGAT
*
55308988 AACTTCGTG
66 AACTACGTG
55308997 TGGA
1 TGGA
55309001 GATTTCATCT
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
74 75 1.00
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (74 bp):
TGGAAATATATTCCGGGTAAGACCCGATGACTACGTGTGGAGATTATGTCCGGGTAAGACCCGAT
AACTACGTG
Found at i:55309005 original size:37 final size:37
Alignment explanation
Indices: 55308860--55309004 Score: 238
Period size: 37 Copynumber: 3.9 Consensus size: 37
55308850 GGAAATATAT
55308860 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
55308897 TCCGGGTAAGACCCGATGACTACGTGTGGAAATATAT-
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGAT-TATG
*
55308934 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
55308971 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
55309005 TCATCTGAGC
Statistics
Matches: 101, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
36 2 0.02
37 96 0.95
38 3 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:55310334 original size:40 final size:40
Alignment explanation
Indices: 55310270--55310623 Score: 611
Period size: 40 Copynumber: 8.8 Consensus size: 40
55310260 AGTTAGATAC
* *
55310270 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATAT
1 CCGGGCTAGGTCCCGAAGAGCATTCGAGCTGGTGTTATAT
*
55310310 CCGAGCTAGGTCCCGAAGAGCATTCGAGCTGGTGTTATAT
1 CCGGGCTAGGTCCCGAAGAGCATTCGAGCTGGTGTTATAT
*
55310350 CCAGGCTAGGTCCCGAAGAGCATTCGAGCTGGTGTTATAT
1 CCGGGCTAGGTCCCGAAGAGCATTCGAGCTGGTGTTATAT
*
55310390 CCGGGCTAGGTCCTGAAGAGCATTCGAGCTGGTGTTATAT
1 CCGGGCTAGGTCCCGAAGAGCATTCGAGCTGGTGTTATAT
55310430 CCGGGCTAGGTCCCGAAGAGCATTCGAGCTGGTGTTATAT
1 CCGGGCTAGGTCCCGAAGAGCATTCGAGCTGGTGTTATAT
55310470 CCGGGCTAGGTCCCGAAGAGCATTCGAGCTGGTGTTATAT
1 CCGGGCTAGGTCCCGAAGAGCATTCGAGCTGGTGTTATAT
55310510 CCGGGCTAGGTCCCGAAGAGCATTCGAGCTGGTGTTATAT
1 CCGGGCTAGGTCCCGAAGAGCATTCGAGCTGGTGTTATAT
* *
55310550 CTGGGCTACGTCCCGAAGAGCATTCGAGCTGGTGTTATAT
1 CCGGGCTAGGTCCCGAAGAGCATTCGAGCTGGTGTTATAT
* *
55310590 CCGGGCTAAGTCTCGAAGAGCATTC-ATGCTGGTG
1 CCGGGCTAGGTCCCGAAGAGCATTCGA-GCTGGTG
55310624 ATGTGTATTC
Statistics
Matches: 300, Mismatches: 13, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
39 1 0.00
40 299 1.00
ACGTcount: A:0.21, C:0.22, G:0.31, T:0.26
Consensus pattern (40 bp):
CCGGGCTAGGTCCCGAAGAGCATTCGAGCTGGTGTTATAT
Found at i:55314011 original size:48 final size:48
Alignment explanation
Indices: 55313942--55314044 Score: 188
Period size: 48 Copynumber: 2.1 Consensus size: 48
55313932 CAAGATAAAT
* *
55313942 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAA
1 ATATGTATGAGATACGTATATGTGGTAAAGCCGAAGGGCTAGTGTGAA
55313990 ATATGTATGAGATACGTATATGTGGTAAAGCCGAAGGGCTAGTGTGAA
1 ATATGTATGAGATACGTATATGTGGTAAAGCCGAAGGGCTAGTGTGAA
55314038 ATATGTA
1 ATATGTA
55314045 GGAGGTGTGT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 53 1.00
ACGTcount: A:0.34, C:0.07, G:0.29, T:0.30
Consensus pattern (48 bp):
ATATGTATGAGATACGTATATGTGGTAAAGCCGAAGGGCTAGTGTGAA
Found at i:55314304 original size:74 final size:74
Alignment explanation
Indices: 55314180--55314331 Score: 277
Period size: 74 Copynumber: 2.1 Consensus size: 74
55314170 ACATGAAACT
55314180 TGGAAATATATTCCGGGTAAGACCCGATGACTACGTGTGGAGATTATGTCCGGGTAAGACCCGAT
1 TGGAAATATATTCCGGGTAAGACCCGATGACTACGTGTGGAGATTATGTCCGGGTAAGACCCGAT
*
55314245 GACTACGTG
66 AACTACGTG
*
55314254 TGGAAATATATTCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGTAAGACCCGAT
1 TGGAAATATATTCCGGGTAAGACCCGATGACTACGTGTGGAGATTATGTCCGGGTAAGACCCGAT
*
55314319 AACTTCGTG
66 AACTACGTG
55314328 TGGA
1 TGGA
55314332 GATTTCATCT
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
74 75 1.00
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (74 bp):
TGGAAATATATTCCGGGTAAGACCCGATGACTACGTGTGGAGATTATGTCCGGGTAAGACCCGAT
AACTACGTG
Found at i:55314336 original size:37 final size:37
Alignment explanation
Indices: 55314191--55314335 Score: 238
Period size: 37 Copynumber: 3.9 Consensus size: 37
55314181 GGAAATATAT
55314191 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
55314228 TCCGGGTAAGACCCGATGACTACGTGTGGAAATATAT-
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGAT-TATG
*
55314265 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
55314302 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
55314336 TCATCTGAGC
Statistics
Matches: 101, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
36 2 0.02
37 96 0.95
38 3 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:55319004 original size:24 final size:23
Alignment explanation
Indices: 55318976--55319023 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
55318966 ACCTTTGCTC
*
55318976 TTTTAGCATGAACTTGTCTTACCT
1 TTTTAGCAT-AACTCGTCTTACCT
*
55319000 TTTTAGTATAACTCGTCTTACCT
1 TTTTAGCATAACTCGTCTTACCT
55319023 T
1 T
55319024 ACCTTACCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.21, C:0.21, G:0.10, T:0.48
Consensus pattern (23 bp):
TTTTAGCATAACTCGTCTTACCT
Found at i:55319282 original size:55 final size:52
Alignment explanation
Indices: 55319152--55319346 Score: 214
Period size: 55 Copynumber: 3.6 Consensus size: 52
55319142 CTACCATTGT
* *
55319152 CATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAACTCACTAATGC
1 CATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAACTTAC-AATGC
* *
55319205 CATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGCAACTTATCAATGC
1 CATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG-AACTTA-CAATGC
* * * *
55319260 CATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGA-AACCTTACCAATTGC
1 CATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATAGAA-CTTA-CAA-TGC
55319315 CATGCCTTGACATGGTCTTACATGGTATCCTT
1 CATGCCTTGACATGGTCTTACATGGTA-CCTT
55319347 AAACCCTAAT
Statistics
Matches: 120, Mismatches: 14, Indels: 14
0.81 0.09 0.09
Matches are distributed among these distances:
52 2 0.02
53 35 0.29
54 9 0.08
55 71 0.59
56 3 0.03
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.35
Consensus pattern (52 bp):
CATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAGAACTTACAATGC
Found at i:55320796 original size:4 final size:4
Alignment explanation
Indices: 55320763--55320814 Score: 56
Period size: 4 Copynumber: 13.5 Consensus size: 4
55320753 TGGTTTACCA
* *
55320763 ATTT ATTTT ATTT GTTT A-TT -TTT CTTT ATTT ATTT -TTT ATTT ATTT
1 ATTT A-TTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
55320809 ATTT AT
1 ATTT AT
55320815 GTCTATTCCC
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
3 7 0.17
4 30 0.73
5 4 0.10
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (4 bp):
ATTT
Found at i:55320805 original size:15 final size:15
Alignment explanation
Indices: 55320768--55320812 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 15
55320758 TACCAATTTA
*
55320768 TTTTATTTGTTTA-T
1 TTTTATTTATTTATT
*
55320782 TTTTCTTTATTTATT
1 TTTTATTTATTTATT
55320797 TTTTATTTATTTATT
1 TTTTATTTATTTATT
55320812 T
1 T
55320813 ATGTCTATTC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 11 0.41
15 16 0.59
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.80
Consensus pattern (15 bp):
TTTTATTTATTTATT
Found at i:55320811 original size:19 final size:19
Alignment explanation
Indices: 55320763--55320814 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
55320753 TGGTTTACCA
*
55320763 ATTTATTTTATTTGTTTATT
1 ATTTA-TTTATTTATTTATT
* *
55320783 -TTTCTTTATTTATTTTTT
1 ATTTATTTATTTATTTATT
55320801 ATTTATTTATTTAT
1 ATTTATTTATTTAT
55320815 GTCTATTCCC
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 12 0.44
19 15 0.56
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (19 bp):
ATTTATTTATTTATTTATT
Found at i:55322805 original size:19 final size:19
Alignment explanation
Indices: 55322781--55322823 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
55322771 GAGAAGAATA
55322781 AGATGGGCACTCACCGAGG
1 AGATGGGCACTCACCGAGG
55322800 AGATGGGCACTCACCGAGG
1 AGATGGGCACTCACCGAGG
55322819 AGATG
1 AGATG
55322824 AACCCAAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.28, C:0.23, G:0.37, T:0.12
Consensus pattern (19 bp):
AGATGGGCACTCACCGAGG
Found at i:55324139 original size:243 final size:242
Alignment explanation
Indices: 55323705--55324192 Score: 843
Period size: 243 Copynumber: 2.0 Consensus size: 242
55323695 GAACCAGCTT
* * *
55323705 CTTCTCAAAAGTCAGATCAGGTCCAACCTCAATCTCCTCAACAGAAATAACATGCGTAGGATCAG
1 CTTCTCAAAAGTCAAATCAGGTCCAACCTCAATCTCCTCAACAGAAATAACATACATAGGATCAG
*
55323770 AGCAGTAGCGCTCAACATAGAGACGTGGAACACATCGTGAATCTGGTCTAACTCTGGAGGTAACT
66 AGCAGTAGCCCTCAACATAGAGACGTGGAACACATCGTGAATCTGGTCTAACTCTGGAGGTAACT
*
55323835 CTAGCTGATAGGCAACTGATCCCACATGTTTCAGTATACGATAAGGCCGAATGAGCCTAGGGCTC
131 CTAGCTGATAGGCAACTGATCCCACATGTTTCAGTATACGATAAGGCCGAATGAACCTAGGGCTC
* *
55323900 AACTTGCCCTTCCGTCCAAACATCAGTTCCTTCTCTCGTAGCAAGAC
196 AACTTGCCCTTCCGTCCAAACATCAGTACCTTCTCCCGTAGCAAGAC
* * *
55323947 CTTCTCGAAAGTCAAATCAGGTCTAACCTCAATCTCCTCAACTA-AAATAACATACATGGGATCA
1 CTTCTCAAAAGTCAAATCAGGTCCAACCTCAATCTCCTCAAC-AGAAATAACATACATAGGATCA
*
55324011 GAGTAGTAGCACCTCAACATAGAGACGTGGAACACATCGTGAATCTGGTCTAACTCTGGAGGTAA
65 GAGCAGTAGC-CCTCAACATAGAGACGTGGAACACATCGTGAATCTGGTCTAACTCTGGAGGTAA
55324076 CTCTAGCTGATAGGCAACTGATCCCACATGTTTCAGTATACGATAAGGCCGAATGAACCTAGGGC
129 CTCTAGCTGATAGGCAACTGATCCCACATGTTTCAGTATACGATAAGGCCGAATGAACCTAGGGC
*
55324141 TCAACTTGCCCTTCCGTCCAAACATCAGTACCTTCTCCCGTAGCGAGAC
194 TCAACTTGCCCTTCCGTCCAAACATCAGTACCTTCTCCCGTAGCAAGAC
55324190 CTT
1 CTT
55324193 GAGAAAAATG
Statistics
Matches: 232, Mismatches: 12, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
242 65 0.28
243 167 0.72
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (242 bp):
CTTCTCAAAAGTCAAATCAGGTCCAACCTCAATCTCCTCAACAGAAATAACATACATAGGATCAG
AGCAGTAGCCCTCAACATAGAGACGTGGAACACATCGTGAATCTGGTCTAACTCTGGAGGTAACT
CTAGCTGATAGGCAACTGATCCCACATGTTTCAGTATACGATAAGGCCGAATGAACCTAGGGCTC
AACTTGCCCTTCCGTCCAAACATCAGTACCTTCTCCCGTAGCAAGAC
Found at i:55328479 original size:49 final size:49
Alignment explanation
Indices: 55328418--55328669 Score: 468
Period size: 49 Copynumber: 5.1 Consensus size: 49
55328408 ATGTATGAGA
*
55328418 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
55328467 TGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
55328516 TGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
55328565 TGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
55328614 TGTATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTG
1 TGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
55328663 TATATAT
1 TGTATAT
55328670 ATATGTGGCA
Statistics
Matches: 199, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 199 1.00
ACGTcount: A:0.30, C:0.08, G:0.31, T:0.31
Consensus pattern (49 bp):
TGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:55328708 original size:147 final size:146
Alignment explanation
Indices: 55328418--55328699 Score: 438
Period size: 147 Copynumber: 1.9 Consensus size: 146
55328408 ATGTATGAGA
*
55328418 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGTGATAA
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAA
* * * * * * *
55328483 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGTGATAAGGCCTAATGGCCGATG
66 GGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATATATGTGACAAAGCCGAATGGCCAATG
55328548 TGATGAATGTGAAAGTG
131 TGATG-ATGTGAAAGTG
*
55328565 TGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAA
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAA
* *
55328630 GGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATATATATGTGGCAAAGCCGAATGGCTAA
66 GGCCTAATGGCCGACGTGATGAATGTGAAAGTG--TATATATATGTGACAAAGCCGAATGGCCAA
55328695 TGTGA
129 TGTGA
55328700 ATGTTGAAAC
Statistics
Matches: 122, Mismatches: 11, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
147 95 0.78
149 27 0.22
ACGTcount: A:0.30, C:0.09, G:0.31, T:0.30
Consensus pattern (146 bp):
TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAA
GGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATATATGTGACAAAGCCGAATGGCCAATG
TGATGATGTGAAAGTG
Found at i:55328795 original size:37 final size:36
Alignment explanation
Indices: 55328740--55328826 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
55328730 AACTTGGAAA
55328740 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGT-AGACCCGATGACTACGTGTGGAGAT
55328778 TATGTCCGGGTACGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTA-GACCCGATGACTACGTGTGGAGAT
55328815 TATGTCCGGGTA
1 TATGTCCGGGTA
55328827 AGACTTCGCA
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 43 0.90
38 4 0.08
ACGTcount: A:0.21, C:0.20, G:0.33, T:0.26
Consensus pattern (36 bp):
TATGTCCGGGTAGACCCGATGACTACGTGTGGAGAT
Found at i:55330755 original size:40 final size:40
Alignment explanation
Indices: 55330711--55330982 Score: 481
Period size: 40 Copynumber: 6.8 Consensus size: 40
55330701 GAGAATTGAG
* *
55330711 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAGGAGCATTCGTGCT
55330751 AGTGATGTATCCGGACTAAGTTCCGAGGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAGGAGCATTCGTGCT
55330791 AGTGATGTATCCGGACTAAGTTCCGAGGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAGGAGCATTCGTGCT
55330831 AGTGATGTATCCGGACTAAGTTCCGAGGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAGGAGCATTCGTGCT
55330871 AGTGATGTATCCGGACTAAGTTCCGAGGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAGGAGCATTCGTGCT
*
55330911 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAGGAGCATTCGTGCT
* * * *
55330951 AGTGATGTATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGACTAAGTTCCGAGGAGCA
55330983 ATCGCGCTGG
Statistics
Matches: 226, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 226 1.00
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.26
Consensus pattern (40 bp):
AGTGATGTATCCGGACTAAGTTCCGAGGAGCATTCGTGCT
Found at i:55331824 original size:40 final size:41
Alignment explanation
Indices: 55331727--55331824 Score: 112
Period size: 41 Copynumber: 2.4 Consensus size: 41
55331717 TCGAATGGTG
* ** * *
55331727 TCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTTACTAAA
1 TCCGGGCTATGTCCCGAAGGCAATTGTGCGAAGTCACTAAA
55331768 TCCGGGCTAAT-TCCCGAAGGCAATTGTGCGAA-TCACTATAA
1 TCCGGGCT-ATGTCCCGAAGGCAATTGTGCGAAGTCACTA-AA
55331809 -CCGGGCTATGTCCCGA
1 TCCGGGCTATGTCCCGA
55331825 GGACAATCGA
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
39 2 0.04
40 18 0.37
41 28 0.57
42 1 0.02
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (41 bp):
TCCGGGCTATGTCCCGAAGGCAATTGTGCGAAGTCACTAAA
Found at i:55331847 original size:40 final size:40
Alignment explanation
Indices: 55331769--55331866 Score: 94
Period size: 40 Copynumber: 2.5 Consensus size: 40
55331759 GTTACTAAAT
* *
55331769 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAATTCCCGAAGGCAATCGAGCGAATCACTATAA
* * *
55331809 CCGGGCT-ATGTCCCG-AGGACAATCGAGCGAGTCGCTATAT
1 CCGGGCTAAT-TCCCGAAGG-CAATCGAGCGAATCACTATAA
* *
55331849 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAATTCCCGAAGG
55331867 TACGTGATTC
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
39 13 0.28
40 34 0.72
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (40 bp):
CCGGGCTAATTCCCGAAGGCAATCGAGCGAATCACTATAA
Found at i:55334650 original size:64 final size:64
Alignment explanation
Indices: 55334600--55334730 Score: 226
Period size: 64 Copynumber: 2.0 Consensus size: 64
55334590 AGATGTATAT
* *
55334600 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGTGATAAGGCCTA
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTATGATAAGGCATA
* *
55334664 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGTGATAAGGCCTA
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTATGATAAGGCATA
55334728 ATG
1 ATG
55334731 GCCGATGTGA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 67 1.00
ACGTcount: A:0.30, C:0.09, G:0.31, T:0.30
Consensus pattern (64 bp):
ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTATGATAAGGCATA
Found at i:55334654 original size:49 final size:49
Alignment explanation
Indices: 55334593--55335039 Score: 269
Period size: 49 Copynumber: 9.1 Consensus size: 49
55334583 ATGTATGAGA
*
55334593 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*** * * *
55334642 TGTATATGTGTGATAAGGCCTAATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TGTATATGTGTGATAAGGCCTAATG-GCCGATG--TGAT-G--AATGTGA--AA-------GTG
55334706 TGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
55334755 TGTATATGTGTGATAAGGCCCAATGGCCGATGTGATGAATGTGAAAGTG
1 TGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * *
55334804 TGTATATGTGCCGAT---G--TGAT-G--AATGTGA--AAGTGTGTATA-TG
1 TGTATATGTG-TGATAAGGCCTAATGGCCGATGTGATGAA-TGTG-AAAGTG
* ** * * ** *
55334845 TGTGATAAG-GCCCA-ATGGCC-GATGTGATGAATGTGA--AAGTGTGTATA-TG
1 TGT-ATATGTG-TGATAAGGCCTAATG-GCCG-ATGTGATGAA-TGTG-AAAGTG
*
55334894 TG----T----GATAAGGCCCAATGGCCGATGTGATGAATGTGAAAGTG
1 TGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
55334935 TGTATATATATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
55334984 TGTATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTG
1 TGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
55335033 TATATAT
1 TGTATAT
55335040 ATATGTGGCA
Statistics
Matches: 323, Mismatches: 33, Indels: 84
0.73 0.08 0.19
Matches are distributed among these distances:
40 11 0.03
41 28 0.09
42 17 0.05
43 1 0.00
44 4 0.01
45 3 0.01
46 1 0.00
47 1 0.00
49 196 0.61
50 6 0.02
52 3 0.01
53 1 0.00
55 6 0.02
56 2 0.01
57 2 0.01
58 6 0.02
60 1 0.00
61 3 0.01
63 3 0.01
64 28 0.09
ACGTcount: A:0.30, C:0.09, G:0.31, T:0.30
Consensus pattern (49 bp):
TGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:55334670 original size:15 final size:15
Alignment explanation
Indices: 55334650--55334681 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
55334640 TGTGTATATG
55334650 TGTGATAAGGCCTAA
1 TGTGATAAGGCCTAA
55334665 TGTGATAAGGCCTAA
1 TGTGATAAGGCCTAA
55334680 TG
1 TG
55334682 GCCGATGTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.12, G:0.28, T:0.28
Consensus pattern (15 bp):
TGTGATAAGGCCTAA
Found at i:55334773 original size:98 final size:98
Alignment explanation
Indices: 55334665--55335039 Score: 346
Period size: 98 Copynumber: 4.0 Consensus size: 98
55334655 TAAGGCCTAA
55334665 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGTGATAAGGCCTAAT
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGTGATAAGGCCTAAT
55334730 GGCCGATGTGATGAATGTGAAAGTGTGTATATG
66 GGCCGATGTGATGAATGTGAAAGTGTGTATATG
* * *
55334763 TGTGATAAGGCCCAATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGCCGAT---G--TGA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTG-TGATAAGGCCTAA
* * *
55334823 T-G--AATGTGA--AAGTGTGTATA-TGTGTGATAAG
65 TGGCCGATGTGATGAA-TGTG-AAAGTGTGT-ATATG
** * * * * * * *
55334854 -GCCCA-ATGGCC-GAT-G-TGATGAATG-TGAAAGT----GTGTATATGTGT--GATAAGGCCC
1 TG-TGATAAGGCCTAATGGCCGATG--TGATGAATGTGAAAGTGTGTATATGTGTGATAAGGCCT
*
55334907 AATGGCCGATGTGATGAATGTGAAAGTGTGTATATA
63 AATGGCCGATGTGATGAATGTGAAAGTGTGTATATG
* *
55334943 TATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAAT
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGTGATAAGGCCTAAT
* *
55335008 GGCCGACGTGATGAATGTGAAAGTGTATATAT
66 GGCCGATGTGATGAATGTGAAAGTGTGTATAT
55335040 ATATGTGGCA
Statistics
Matches: 214, Mismatches: 33, Indels: 60
0.70 0.11 0.20
Matches are distributed among these distances:
81 3 0.01
84 11 0.05
86 2 0.01
87 5 0.02
88 7 0.03
89 18 0.08
90 29 0.14
91 19 0.09
92 7 0.03
93 5 0.02
94 3 0.01
96 10 0.05
98 92 0.43
99 3 0.01
ACGTcount: A:0.30, C:0.09, G:0.31, T:0.30
Consensus pattern (98 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGTGATAAGGCCTAAT
GGCCGATGTGATGAATGTGAAAGTGTGTATATG
Found at i:55334817 original size:33 final size:33
Alignment explanation
Indices: 55334780--55334846 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
55334770 AGGCCCAATG
55334780 GCCGATGTGATGAATGTGAAAGTGTGTATATGT
1 GCCGATGTGATGAATGTGAAAGTGTGTATATGT
55334813 GCCGATGTGATGAATGTGAAAGTGTGTATATGT
1 GCCGATGTGATGAATGTGAAAGTGTGTATATGT
55334846 G
1 G
55334847 TGATAAGGCC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.27, C:0.06, G:0.34, T:0.33
Consensus pattern (33 bp):
GCCGATGTGATGAATGTGAAAGTGTGTATATGT
Found at i:55334819 original size:82 final size:82
Alignment explanation
Indices: 55334731--55334895 Score: 330
Period size: 82 Copynumber: 2.0 Consensus size: 82
55334721 AGGCCTAATG
55334731 GCCGATGTGATGAATGTGAAAGTGTGTATATGTGTGATAAGGCCCAATGGCCGATGTGATGAATG
1 GCCGATGTGATGAATGTGAAAGTGTGTATATGTGTGATAAGGCCCAATGGCCGATGTGATGAATG
55334796 TGAAAGTGTGTATATGT
66 TGAAAGTGTGTATATGT
55334813 GCCGATGTGATGAATGTGAAAGTGTGTATATGTGTGATAAGGCCCAATGGCCGATGTGATGAATG
1 GCCGATGTGATGAATGTGAAAGTGTGTATATGTGTGATAAGGCCCAATGGCCGATGTGATGAATG
55334878 TGAAAGTGTGTATATGT
66 TGAAAGTGTGTATATGT
55334895 G
1 G
55334896 TGATAAGGCC
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 83 1.00
ACGTcount: A:0.28, C:0.08, G:0.33, T:0.30
Consensus pattern (82 bp):
GCCGATGTGATGAATGTGAAAGTGTGTATATGTGTGATAAGGCCCAATGGCCGATGTGATGAATG
TGAAAGTGTGTATATGT
Found at i:55334825 original size:131 final size:136
Alignment explanation
Indices: 55334679--55335039 Score: 552
Period size: 131 Copynumber: 2.6 Consensus size: 136
55334669 ATAAGGCCTA
55334679 ATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGA
55334744 ATGTGAAAGTGTGTATATGTGTGATAAGGCCCAATGGCCGATGTGATGAATGTGAAAGTGTG-TA
66 ATGTGAAAGTGTGTATATGTGTGATAAGGCCCAATGGCCGATGTGATGAATGTGAAAGTGTGATA
55334808 T-AT-G
131 TGATAG
*
55334812 -T-GCCGATGTGATGAATGTGAAAGTGTGTATATGTGTGATAAGGCCCAATGGCCGATGTGATGA
1 ATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGA
55334875 ATGTGAAAGTGTGTATATGTGTGATAAGGCCCAATGGCCGATGTGATGAATGTGAAAGTGTGTAT
66 ATGTGAAAGTGTGTATATGTGTGATAAGGCCCAATGGCCGATGTGATGAATGTGAAAGTGTG---
55334940 ATATATGATAAGG
128 --ATATGAT-A-G
* *
55334953 CCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGACGTG
1 ----ATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGTGATAAGGCCTAATGGCCGATGTG
*
55335018 ATGAATGTGAAAGTGTATATAT
62 ATGAATGTGAAAGTGTGTATAT
55335040 ATATGTGGCA
Statistics
Matches: 207, Mismatches: 5, Indels: 18
0.90 0.02 0.08
Matches are distributed among these distances:
131 123 0.59
132 1 0.00
137 3 0.01
138 2 0.01
141 1 0.00
146 1 0.00
147 76 0.37
ACGTcount: A:0.30, C:0.09, G:0.32, T:0.30
Consensus pattern (136 bp):
ATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGA
ATGTGAAAGTGTGTATATGTGTGATAAGGCCCAATGGCCGATGTGATGAATGTGAAAGTGTGATA
TGATAG
Found at i:55334967 original size:180 final size:180
Alignment explanation
Indices: 55334665--55334990 Score: 607
Period size: 180 Copynumber: 1.8 Consensus size: 180
55334655 TAAGGCCTAA
* *
55334665 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGTGATAAGGCCTAAT
1 TGTGATAAGGCCCAATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGTGATAAGGCCCAAT
* *
55334730 GGCCGATGTGATGAATGTGAAAGTGTGTATATGTGTGATAAGGCCCAATGGCCGATGTGATGAAT
66 GGCCGATGTGATGAATGTGAAAGTGTGTATATATATGATAAGGCCCAATGGCCGATGTGATGAAT
55334795 GTGAAAGTGTGTATATGTGCCGATGTGATGAATGTGAAAGTGTGTATATG
131 GTGAAAGTGTGTATATGTGCCGATGTGATGAATGTGAAAGTGTGTATATG
55334845 TGTGATAAGGCCCAATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGTGATAAGGCCCAAT
1 TGTGATAAGGCCCAATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGTGATAAGGCCCAAT
*
55334910 GGCCGATGTGATGAATGTGAAAGTGTGTATATATATGATAAGGCCTAATGGCCGATGTGATGAAT
66 GGCCGATGTGATGAATGTGAAAGTGTGTATATATATGATAAGGCCCAATGGCCGATGTGATGAAT
55334975 GTGAAAGTGTGTATAT
131 GTGAAAGTGTGTATAT
55334991 ATGTGATAAG
Statistics
Matches: 141, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
180 141 1.00
ACGTcount: A:0.29, C:0.09, G:0.32, T:0.30
Consensus pattern (180 bp):
TGTGATAAGGCCCAATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGTGATAAGGCCCAAT
GGCCGATGTGATGAATGTGAAAGTGTGTATATATATGATAAGGCCCAATGGCCGATGTGATGAAT
GTGAAAGTGTGTATATGTGCCGATGTGATGAATGTGAAAGTGTGTATATG
Found at i:55335040 original size:49 final size:49
Alignment explanation
Indices: 55334813--55335041 Score: 395
Period size: 49 Copynumber: 4.7 Consensus size: 49
55334803 GTGTATATGT
*
55334813 GCCGATGTGATGAATGTGAAAGTGTGTATATGTGTGATAAGGCCCAATG
1 GCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCCCAATG
*
55334862 GCCGATGTGATGAATGTGAAAGTGTGTATATGTGTGATAAGGCCCAATG
1 GCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCCCAATG
* *
55334911 GCCGATGTGATGAATGTGAAAGTGTGTATATATATGATAAGGCCTAATG
1 GCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCCCAATG
*
55334960 GCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATG
1 GCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCCCAATG
* *
55335009 GCCGACGTGATGAATGTGAAAGTGTATATATAT
1 GCCGATGTGATGAATGTGAAAGTGTGTATATAT
55335042 ATGTGGCAAA
Statistics
Matches: 174, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 174 1.00
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.30
Consensus pattern (49 bp):
GCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCCCAATG
Found at i:55335165 original size:37 final size:36
Alignment explanation
Indices: 55335110--55335196 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
55335100 AACTTGGAAA
55335110 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGT-AGACCCGATGACTACGTGTGGAGAT
55335148 TATGTCCGGGTACGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTA-GACCCGATGACTACGTGTGGAGAT
55335185 TATGTCCGGGTA
1 TATGTCCGGGTA
55335197 AGACTTCGCA
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 43 0.90
38 4 0.08
ACGTcount: A:0.21, C:0.20, G:0.33, T:0.26
Consensus pattern (36 bp):
TATGTCCGGGTAGACCCGATGACTACGTGTGGAGAT
Found at i:55352573 original size:29 final size:29
Alignment explanation
Indices: 55352534--55352608 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 29
55352524 GGTTGAGAGA
* *
55352534 ATGGCACTAAGTGTGCGGGCTTGAAA-TGC
1 ATGGCACTAAGTGTGCGAG-TTGAAAGTAC
*
55352563 ATGGCACTAAGTGTGCGAGTTTAAAGTAC
1 ATGGCACTAAGTGTGCGAGTTGAAAGTAC
55352592 ATGGCACTAAGTGTGCG
1 ATGGCACTAAGTGTGCG
55352609 TGGTTGATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
28 5 0.12
29 37 0.88
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGTTGAAAGTAC
Found at i:55357023 original size:49 final size:49
Alignment explanation
Indices: 55356951--55357187 Score: 330
Period size: 49 Copynumber: 4.8 Consensus size: 49
55356941 ATATCAAAAT
* * * *
55356951 TGTGAAAATGTATACATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTATATATATATGTGATAAGGCCTAATGGCCGACGTGATGAA
*
55357000 TGTGAAAGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTATATATATATGTGATAAGGCCTAATGGCCGACGTGATGAA
*
55357049 TGTGAAAATGTATATATATGTGTGATAAGGCCTAATGGCCGACGTGATGAA
1 TGTG-AAA-GTATATATATATGTGATAAGGCCTAATGGCCGACGTGATGAA
* * *
55357100 TGTGAAAGTGTATACACATGTGATAAGGCCTAATGGCCGACGTGATGAA
1 TGTGAAAGTATATATATATGTGATAAGGCCTAATGGCCGACGTGATGAA
* * *
55357149 TGTGAAAGTGTATATATATATGTGGTAAAGCCGAATGGC
1 TGTGAAA--GTATATATATATGTGATAAGGCCTAATGGC
55357188 TAATGTGAAT
Statistics
Matches: 169, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
49 95 0.56
50 6 0.04
51 68 0.40
ACGTcount: A:0.34, C:0.10, G:0.27, T:0.29
Consensus pattern (49 bp):
TGTGAAAGTATATATATATGTGATAAGGCCTAATGGCCGACGTGATGAA
Found at i:55357122 original size:100 final size:99
Alignment explanation
Indices: 55356951--55357187 Score: 359
Period size: 100 Copynumber: 2.4 Consensus size: 99
55356941 ATATCAAAAT
* * *
55356951 TGTGAAAATGTATACATA-TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATAT
1 TGTGAAAATGTATATATATTGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTATATAC
* *
55357015 ATATGTGATAAGGCCTAATGGCCGATGTGATGAA
66 ACATGTGATAAGGCCTAATGGCCGACGTGATGAA
*
55357049 TGTGAAAATGTATATATATGTGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATA
1 TGTGAAAATGTATATATAT-TGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTATATA
55357114 CACATGTGATAAGGCCTAATGGCCGACGTGATGAA
65 CACATGTGATAAGGCCTAATGGCCGACGTGATGAA
* * * *
55357149 TGTGAAAGTGTATATATATATGTGGTAAAGCCGAATGGC
1 TGTGAAAATGTATATATAT-TGTGATAAGGCCTAATGGC
55357188 TAATGTGAAT
Statistics
Matches: 126, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
98 17 0.13
100 109 0.87
ACGTcount: A:0.34, C:0.10, G:0.27, T:0.29
Consensus pattern (99 bp):
TGTGAAAATGTATATATATTGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTATATAC
ACATGTGATAAGGCCTAATGGCCGACGTGATGAA
Found at i:55363924 original size:2 final size:2
Alignment explanation
Indices: 55363908--55363950 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
55363898 AGTATAGTTG
*
55363908 AT AT -T AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
55363949 AT
1 AT
55363951 GCATGTGTGA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Done.