Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 113 of 161
Found at i:35896273 original size:13 final size:12
Alignment explanation
Indices: 35896243--35896279 Score: 58
Period size: 13 Copynumber: 3.1 Consensus size: 12
35896233 ATTTTAAAAG
35896243 TTTTATAAC-TT
1 TTTTATAACTTT
35896254 TTTTATAACTTT
1 TTTTATAACTTT
35896266 TGTTTATAACTTT
1 T-TTTATAACTTT
35896279 T
1 T
35896280 ATGGTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 9 0.38
12 3 0.12
13 12 0.50
ACGTcount: A:0.24, C:0.08, G:0.03, T:0.65
Consensus pattern (12 bp):
TTTTATAACTTT
Found at i:35909667 original size:5 final size:5
Alignment explanation
Indices: 35909660--35909695 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
35909650 TAGTATTATG
* *
35909660 AAATG AAATG AAATA AAATA AAATA AAATA AAATA A
1 AAATA AAATA AAATA AAATA AAATA AAATA AAATA A
35909696 CTAGAAATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:35909703 original size:15 final size:16
Alignment explanation
Indices: 35909660--35909710 Score: 56
Period size: 15 Copynumber: 3.4 Consensus size: 16
35909650 TAGTATTATG
*
35909660 AAATGAAAT-GAAATA
1 AAATAAAATAGAAATA
35909675 AAATAAAATA-AAATA
1 AAATAAAATAGAAATA
*
35909690 AAAT-AACTAGAAAT-
1 AAATAAAATAGAAATA
35909704 AAATAAA
1 AAATAAA
35909711 TCAACGAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
14 8 0.26
15 23 0.74
ACGTcount: A:0.73, C:0.02, G:0.06, T:0.20
Consensus pattern (16 bp):
AAATAAAATAGAAATA
Found at i:35910949 original size:51 final size:51
Alignment explanation
Indices: 35910889--35910992 Score: 208
Period size: 51 Copynumber: 2.0 Consensus size: 51
35910879 CAGAATCAAA
35910889 TCAATTGGTTGGATTTTACCATTTGGTATTACTTTTGTTTGTTTGTTTTAT
1 TCAATTGGTTGGATTTTACCATTTGGTATTACTTTTGTTTGTTTGTTTTAT
35910940 TCAATTGGTTGGATTTTACCATTTGGTATTACTTTTGTTTGTTTGTTTTAT
1 TCAATTGGTTGGATTTTACCATTTGGTATTACTTTTGTTTGTTTGTTTTAT
35910991 TC
1 TC
35910993 TTTTTAATTT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.15, C:0.09, G:0.17, T:0.59
Consensus pattern (51 bp):
TCAATTGGTTGGATTTTACCATTTGGTATTACTTTTGTTTGTTTGTTTTAT
Found at i:35911060 original size:4 final size:5
Alignment explanation
Indices: 35911046--35911087 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
35911036 TTCTTTATTC
* *
35911046 TTTAT TTTA- TTTAT TTTAT TTTCAT ATTAT TTTGT TTTAT TT
1 TTTAT TTTAT TTTAT TTTAT TTT-AT TTTAT TTTAT TTTAT TT
35911088 CTTTTCTTCT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
4 4 0.13
5 23 0.74
6 4 0.13
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.76
Consensus pattern (5 bp):
TTTAT
Found at i:35911065 original size:21 final size:22
Alignment explanation
Indices: 35911039--35911091 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
35911029 TCCCACATTC
*
35911039 TTTATTCTTTATTTTA-TTTAT
1 TTTATTCTTTATATTATTTTAT
* *
35911060 TTTATT-TTCATATTATTTTGT
1 TTTATTCTTTATATTATTTTAT
35911081 TTTATTTCTTT
1 TTTA-TTCTTT
35911092 TCTTCTTGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 7 0.28
21 14 0.56
22 2 0.08
23 2 0.08
ACGTcount: A:0.17, C:0.06, G:0.02, T:0.75
Consensus pattern (22 bp):
TTTATTCTTTATATTATTTTAT
Found at i:35914714 original size:9 final size:9
Alignment explanation
Indices: 35914694--35914736 Score: 50
Period size: 10 Copynumber: 4.4 Consensus size: 9
35914684 AATGTTAGAC
35914694 ATTTATTTTT
1 ATTTA-TTTT
*
35914704 ATTTGTTTT
1 ATTTATTTT
35914713 ATTTATTTT
1 ATTTATTTT
35914722 ATTTTATTTCT
1 A-TTTATTT-T
35914733 ATTT
1 ATTT
35914737 TTAAGGAAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
9 13 0.45
10 14 0.48
11 2 0.07
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (9 bp):
ATTTATTTT
Found at i:35914728 original size:14 final size:15
Alignment explanation
Indices: 35914695--35914736 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
35914685 ATGTTAGACA
* *
35914695 TTTATTTTTATTTGT
1 TTTATTTATATTTAT
35914710 TTTATTTAT-TTTAT
1 TTTATTTATATTTAT
*
35914724 TTTATTTCTATTT
1 TTTATTTATATTT
35914737 TTAAGGAAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (15 bp):
TTTATTTATATTTAT
Found at i:35927324 original size:35 final size:35
Alignment explanation
Indices: 35927284--35927352 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
35927274 CCTCTTTACG
35927284 TTTTTCTTCTTCTTCCCCTTCCCTTTTCTTTTTCA
1 TTTTTCTTCTTCTTCCCCTTCCCTTTTCTTTTTCA
35927319 TTTTTCTTCTTCTTCCCCTTCCCTTTTCTTTTTC
1 TTTTTCTTCTTCTTCCCCTTCCCTTTTCTTTTTC
35927353 CACTTCTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.01, C:0.35, G:0.00, T:0.64
Consensus pattern (35 bp):
TTTTTCTTCTTCTTCCCCTTCCCTTTTCTTTTTCA
Found at i:35940920 original size:18 final size:17
Alignment explanation
Indices: 35940887--35940925 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
35940877 TTGTATAAAT
35940887 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
35940905 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
35940922 TGTG
1 TGTG
35940926 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:35941178 original size:23 final size:23
Alignment explanation
Indices: 35941151--35941248 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
35941141 AGTGTTATTG
35941151 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
35941174 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
35941197 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
35941219 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
35941242 ATCAGTG
1 ATCAGTG
35941249 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:35941217 original size:45 final size:45
Alignment explanation
Indices: 35941153--35941241 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
35941143 TGTTATTGAT
* *
35941153 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
35941198 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
35941242 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:35947885 original size:17 final size:18
Alignment explanation
Indices: 35947847--35947890 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
35947837 AATTTCAATG
35947847 AAAATGTTGAAAAAGGGTT
1 AAAATG-TGAAAAAGGGTT
* *
35947866 AAATTGTGAAAAATGG-T
1 AAAATGTGAAAAAGGGTT
35947883 AAAATGTG
1 AAAATGTG
35947891 CATAAAGTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 8 0.36
18 9 0.41
19 5 0.23
ACGTcount: A:0.48, C:0.00, G:0.25, T:0.27
Consensus pattern (18 bp):
AAAATGTGAAAAAGGGTT
Found at i:35948260 original size:18 final size:17
Alignment explanation
Indices: 35948237--35948277 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
35948227 TTGTATAAAT
35948237 TGTGAATT-ATATTTGATA
1 TGTGAATTAATATTT-A-A
35948255 TGTGAATTAATATTTAA
1 TGTGAATTAATATTTAA
35948272 TGTGAA
1 TGTGAA
35948278 AGGAAAATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 7 0.32
18 9 0.41
19 6 0.27
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.46
Consensus pattern (17 bp):
TGTGAATTAATATTTAA
Found at i:35948528 original size:23 final size:23
Alignment explanation
Indices: 35948501--35948553 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
35948491 AGTGTTATTG
35948501 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
35948524 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
35948547 ATCAGTG
1 ATCAGTG
35948554 TTGCACTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:35953812 original size:37 final size:38
Alignment explanation
Indices: 35953740--35953812 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 38
35953730 GAGAATCAAA
* **
35953740 AACAAGGCTAGATCTCGTTAAATAACTTGAAAATCTGT
1 AACAAGGCGAGATCTCGTTAAATAACCCGAAAATCTGT
*
35953778 AACAAGGCGAGATCTCGTT-AATAACCCGAGAATCT
1 AACAAGGCGAGATCTCGTTAAATAACCCGAAAATCT
35953813 ACAACAAATG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 13 0.42
38 18 0.58
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (38 bp):
AACAAGGCGAGATCTCGTTAAATAACCCGAAAATCTGT
Found at i:35953819 original size:37 final size:38
Alignment explanation
Indices: 35953730--35953819 Score: 101
Period size: 38 Copynumber: 2.4 Consensus size: 38
35953720 CATATTACCT
* * **
35953730 GAGAATCAAAAACAAGGCTAGATCTCGTTAAATAACTT
1 GAGAATCTAAAACAAGGCGAGATCTCGTTAAATAACCC
* **
35953768 GAAAATCTGTAACAAGGCGAGATCTCGTT-AATAACCC
1 GAGAATCTAAAACAAGGCGAGATCTCGTTAAATAACCC
*
35953805 GAGAATCTACAACAA
1 GAGAATCTAAAACAA
35953820 ATGATAGATG
Statistics
Matches: 42, Mismatches: 10, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
37 18 0.43
38 24 0.57
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.21
Consensus pattern (38 bp):
GAGAATCTAAAACAAGGCGAGATCTCGTTAAATAACCC
Found at i:35958389 original size:51 final size:51
Alignment explanation
Indices: 35958309--35958406 Score: 144
Period size: 51 Copynumber: 1.9 Consensus size: 51
35958299 TGTGTTCTGG
* *
35958309 AGGGATGTGTAGCCTACAGGCTTAGCACTCAGTGCCTAGGTTTGTTTCTAT
1 AGGGATGTGAAGCCTACAGGCTTAGCACTCAGTGCCTAGGTGTGTTTCTAT
* *
35958360 AGGGATGTGAAGCCTGCGGGCTT-GACACTCAGTGCCTAGGTGTGTTT
1 AGGGATGTGAAGCCTACAGGCTTAG-CACTCAGTGCCTAGGTGTGTTT
35958407 ATGGATGGTA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
50 1 0.02
51 41 0.98
ACGTcount: A:0.18, C:0.19, G:0.32, T:0.31
Consensus pattern (51 bp):
AGGGATGTGAAGCCTACAGGCTTAGCACTCAGTGCCTAGGTGTGTTTCTAT
Found at i:35960575 original size:11 final size:11
Alignment explanation
Indices: 35960558--35960626 Score: 59
Period size: 11 Copynumber: 6.1 Consensus size: 11
35960548 ATTAGATAAA
35960558 TATTATTTTAT
1 TATTATTTTAT
*
35960569 TAATATTTTAAT
1 TATTATTTT-AT
* *
35960581 GAGATATTTTAT
1 TA-TTATTTTAT
*
35960593 TTTTATTTTAT
1 TATTATTTTAT
*
35960604 TTTTATTATT-T
1 TATTATT-TTAT
35960615 TATTATTTTAT
1 TATTATTTTAT
35960626 T
1 T
35960627 TAGTATATAA
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
10 2 0.04
11 32 0.67
12 7 0.15
13 7 0.15
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.70
Consensus pattern (11 bp):
TATTATTTTAT
Found at i:35962414 original size:64 final size:64
Alignment explanation
Indices: 35962291--35962415 Score: 142
Period size: 64 Copynumber: 2.0 Consensus size: 64
35962281 CATCCCAATT
** * * * * * ***
35962291 GGTATTGATCCTGCATGTGTTGTGGACTTACCGCAGCTCTCTGTGAGTGTCCTGTTATATGATC
1 GGTATTGATCCTGCACATATTGCGGACATACCGCAGCTCTCTATGAGCGTCCCAATATATGATC
* *
35962355 GGTATTGATCCTGCACATATTGCGGACATACTGCAGCTCTTTATGAGCGTCCCAATATATG
1 GGTATTGATCCTGCACATATTGCGGACATACCGCAGCTCTCTATGAGCGTCCCAATATATG
35962416 GCTCTTCATG
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
64 49 1.00
ACGTcount: A:0.20, C:0.22, G:0.24, T:0.34
Consensus pattern (64 bp):
GGTATTGATCCTGCACATATTGCGGACATACCGCAGCTCTCTATGAGCGTCCCAATATATGATC
Found at i:35968496 original size:20 final size:19
Alignment explanation
Indices: 35968471--35968532 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 19
35968461 AAGAATTTTA
35968471 ATAAATTCATATAAATATTG
1 ATAAATTC-TATAAATATTG
*
35968491 ATAAA-TCTTTATAA-A-TG
1 ATAAATTCTATA-AATATTG
35968508 -TAAATTCTTATAAATATTG
1 ATAAATTC-TATAAATATTG
35968527 ATAAAT
1 ATAAAT
35968533 CATTTACAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
16 4 0.12
17 6 0.18
18 8 0.24
19 6 0.18
20 10 0.29
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.42
Consensus pattern (19 bp):
ATAAATTCTATAAATATTG
Found at i:35968994 original size:20 final size:19
Alignment explanation
Indices: 35968953--35969048 Score: 52
Period size: 20 Copynumber: 4.9 Consensus size: 19
35968943 ATAGGCTTAC
*
35968953 AAATT-TTAGAAATATTAGT
1 AAATTGTTAGAAAT-TTTGT
35968972 AAATTGTTAGAAATTTTGCT
1 AAATTGTTAGAAATTTTG-T
* * * *
35968992 AAAATATAAGATATTTTGAT
1 AAATTGTTAGAAATTTTG-T
* * *
35969012 AAAATCTT-GAAATTGTGGT
1 AAATTGTTAGAAATT-TTGT
* *
35969031 AGATTGTTAGATATTTTG
1 AAATTGTTAGAAATTTTG
35969049 GTATAGTCAT
Statistics
Matches: 58, Mismatches: 15, Indels: 8
0.72 0.19 0.10
Matches are distributed among these distances:
19 21 0.36
20 37 0.64
ACGTcount: A:0.40, C:0.02, G:0.16, T:0.43
Consensus pattern (19 bp):
AAATTGTTAGAAATTTTGT
Found at i:35971896 original size:132 final size:132
Alignment explanation
Indices: 35971676--35972143 Score: 722
Period size: 132 Copynumber: 3.5 Consensus size: 132
35971666 CCTACTACGA
* * *
35971676 TGGGAAGATAAGATTCACCGTCTTCGATCTACTCCACTACTACTTAGGGAGACA-AGATCTGCAA
1 TGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGA-ATCTGCAA
* *
35971740 TCTTCAACCTACTCCACTGTTGCTCAGGGAGATAGGACTAATGGCCTAAATCTGCTTCTCCACTA
65 TCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTA
35971805 TCT
130 TCT
* **
35971808 TGGGAAGATAAGATTCACCATTTTTTATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCAAT
1 TGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCAAT
* * * *
35971873 CTTAAACCTACTCCACTGCTGCTCAGAGAGATAAGACTAATGGCTTAAATATGCTTCTCCACTAT
66 CTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTAT
35971938 CT
131 CT
* *
35971940 TGGGAAGATAAGATTCACCATTTTCGATCTGCTCCACTACTGTTTAGGGAGACAGAATCTGCAAT
1 TGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCAAT
* * *
35972005 CTTCAACCTACTCCACTGCTGTTCAGGGAGATAGGATTAATGGCTTAAATCTACTTCTCCACTAT
66 CTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTAT
35972070 CT
131 CT
*** * *
35972072 TGGGAAGATAAGATTTGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGTAAT
1 TGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCAAT
35972137 CTTCAAC
66 CTTCAAC
35972144 GGTTTATTCT
Statistics
Matches: 306, Mismatches: 29, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
132 305 1.00
133 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (132 bp):
TGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCAAT
CTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTAT
CT
Found at i:35982777 original size:16 final size:16
Alignment explanation
Indices: 35982756--35982789 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
35982746 TTTTAGGACG
* *
35982756 AAATGCTATGCAGTCA
1 AAATGCCATGCAATCA
35982772 AAATGCCATGCAATCA
1 AAATGCCATGCAATCA
35982788 AA
1 AA
35982790 GCAAAACATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.21, G:0.15, T:0.21
Consensus pattern (16 bp):
AAATGCCATGCAATCA
Found at i:35993458 original size:35 final size:32
Alignment explanation
Indices: 35993391--35993465 Score: 87
Period size: 35 Copynumber: 2.2 Consensus size: 32
35993381 AAATTTCAAT
*
35993391 AAATAAAAAATATATAAATTTATTAAATATTA
1 AAATAAAAAATATATAAATTTATTAAAAATTA
* *
35993423 AAATAAAACAATATAAATATATTTTTTAAAAATTA
1 AAATAAAA-AATAT--ATAAATTTATTAAAAATTA
*
35993458 AAAGAAAA
1 AAATAAAA
35993466 TTATTGTTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
32 8 0.22
33 5 0.14
35 23 0.64
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (32 bp):
AAATAAAAAATATATAAATTTATTAAAAATTA
Found at i:35993968 original size:28 final size:28
Alignment explanation
Indices: 35993913--35993969 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
35993903 TTTAATTATC
* * * *
35993913 AATTATTGTACAATTGATTTTTTTAAAG
1 AATTATTGTACAATTAATATATTAAAAG
*
35993941 AATTATTGTATAATTAATATATTAAAAG
1 AATTATTGTACAATTAATATATTAAAAG
35993969 A
1 A
35993970 CAACAACTTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.46
Consensus pattern (28 bp):
AATTATTGTACAATTAATATATTAAAAG
Found at i:35995986 original size:21 final size:22
Alignment explanation
Indices: 35995977--35996016 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
35995967 TTTAGTTTTA
35995977 TAATATTTTATTTAGTAATTAT
1 TAATATTTTATTTAGTAATTAT
35995999 TAATATTTT-TTTA-TAATT
1 TAATATTTTATTTAGTAATT
35996017 TAAAAAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 4 0.22
22 9 0.50
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (22 bp):
TAATATTTTATTTAGTAATTAT
Found at i:35997869 original size:18 final size:18
Alignment explanation
Indices: 35997846--35997881 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
35997836 TCTTAGCCAC
35997846 GATCAATTTTTAACAGTA
1 GATCAATTTTTAACAGTA
35997864 GATCAATTTTTAACAGTA
1 GATCAATTTTTAACAGTA
35997882 AAAATAGGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (18 bp):
GATCAATTTTTAACAGTA
Found at i:35997963 original size:5 final size:6
Alignment explanation
Indices: 35997936--35997961 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
35997926 AAAGAAAAAG
35997936 TTTATT TTTATT TTTATT TTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TT
35997962 ATCCATTCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTATT
Found at i:36001252 original size:217 final size:217
Alignment explanation
Indices: 36000877--36001309 Score: 866
Period size: 217 Copynumber: 2.0 Consensus size: 217
36000867 TGCAGCAATA
36000877 TTAGTCTCGGTTCTAACACGCTTCCCCACAGTAATTGCATGCTTGAACAACCCACTAATGTTCCT
1 TTAGTCTCGGTTCTAACACGCTTCCCCACAGTAATTGCATGCTTGAACAACCCACTAATGTTCCT
36000942 TCCGAAGCCAAGAACACCTTCTCCAGCTTTGACAACTTGTCTAACTTGTGCAAGAATTTGACCCT
66 TCCGAAGCCAAGAACACCTTCTCCAGCTTTGACAACTTGTCTAACTTGTGCAAGAATTTGACCCT
36001007 CTCCAAGAACAAGAGAATCAAGACCAGCCGATACTTCAAAGAGGTGCTGGGTAGCATCCTTGTTG
131 CTCCAAGAACAAGAGAATCAAGACCAGCCGATACTTCAAAGAGGTGCTGGGTAGCATCCTTGTTG
36001072 TACAACAAAAATCGATGCTCAC
196 TACAACAAAAATCGATGCTCAC
36001094 TTAGTCTCGGTTCTAACACGCTTCCCCACAGTAATTGCATGCTTGAACAACCCACTAATGTTCCT
1 TTAGTCTCGGTTCTAACACGCTTCCCCACAGTAATTGCATGCTTGAACAACCCACTAATGTTCCT
36001159 TCCGAAGCCAAGAACACCTTCTCCAGCTTTGACAACTTGTCTAACTTGTGCAAGAATTTGACCCT
66 TCCGAAGCCAAGAACACCTTCTCCAGCTTTGACAACTTGTCTAACTTGTGCAAGAATTTGACCCT
36001224 CTCCAAGAACAAGAGAATCAAGACCAGCCGATACTTCAAAGAGGTGCTGGGTAGCATCCTTGTTG
131 CTCCAAGAACAAGAGAATCAAGACCAGCCGATACTTCAAAGAGGTGCTGGGTAGCATCCTTGTTG
36001289 TACAACAAAAATCGATGCTCA
196 TACAACAAAAATCGATGCTCA
36001310 TAAATCTTTG
Statistics
Matches: 216, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
217 216 1.00
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.25
Consensus pattern (217 bp):
TTAGTCTCGGTTCTAACACGCTTCCCCACAGTAATTGCATGCTTGAACAACCCACTAATGTTCCT
TCCGAAGCCAAGAACACCTTCTCCAGCTTTGACAACTTGTCTAACTTGTGCAAGAATTTGACCCT
CTCCAAGAACAAGAGAATCAAGACCAGCCGATACTTCAAAGAGGTGCTGGGTAGCATCCTTGTTG
TACAACAAAAATCGATGCTCAC
Found at i:36002977 original size:28 final size:28
Alignment explanation
Indices: 36002944--36002999 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 28
36002934 TTACGGTTTA
36002944 ATATATTATACAAGAT-AAAGATATAAATCT
1 ATAT-TTATA-AAGATGAAA-ATATAAATCT
*
36002974 ATATTTATAGAGATGAAAATATAAAT
1 ATATTTATAAAGATGAAAATATAAAT
36003000 AATATAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 12 0.50
29 8 0.33
30 4 0.17
ACGTcount: A:0.54, C:0.04, G:0.09, T:0.34
Consensus pattern (28 bp):
ATATTTATAAAGATGAAAATATAAATCT
Found at i:36004338 original size:81 final size:79
Alignment explanation
Indices: 36004216--36004450 Score: 263
Period size: 79 Copynumber: 3.0 Consensus size: 79
36004206 ACAGTATAAA
*
36004216 AATTTAT-TCATGTTTTGATTATA-ATAAATATATAATATATGCAACGTTTTTGATTGATTCAAT
1 AATTTATAT-ATGTTTCGATTATATATAAATATATAATATATGC-ACG-TTTTGATTGATTCAAT
* *
36004279 CTATTAGATGCATGCTT
63 CAATGAGATGCATGCTT
* * *
36004296 AATTTATATATGTTTCAATTATATATAAATATATAATATATGCATGTTTTGATTGATTCAATGAA
1 AATTTATATATGTTTCGATTATATATAAATATATAATATATGCACGTTTTGATTGATTCAATCAA
*
36004361 TGAGATGTATGCTT
66 TGAGATGCATGCTT
* * *
36004375 AATTCATATATATGTTTCG-GT-TATATACATA-AT-ATATAT--ATGTTTTGATTGATTCAA-C
1 AATT--TATATATGTTTCGATTATATATAAATATATAATATATGCACGTTTTGATTGATTCAATC
36004433 ATATGAGATGCATGCTT
64 A-ATGAGATGCATGCTT
36004450 A
1 A
36004451 TATGATTAAA
Statistics
Matches: 138, Mismatches: 12, Indels: 15
0.84 0.07 0.09
Matches are distributed among these distances:
74 1 0.01
75 33 0.24
77 6 0.04
78 2 0.01
79 42 0.30
80 22 0.16
81 32 0.23
ACGTcount: A:0.35, C:0.08, G:0.12, T:0.45
Consensus pattern (79 bp):
AATTTATATATGTTTCGATTATATATAAATATATAATATATGCACGTTTTGATTGATTCAATCAA
TGAGATGCATGCTT
Found at i:36005155 original size:29 final size:29
Alignment explanation
Indices: 36005121--36005179 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
36005111 ATAATCATAT
36005121 ATCATGTTCAACTTGATTACAAACTTACA
1 ATCATGTTCAACTTGATTACAAACTTACA
36005150 ATCATGTTCAACTTGATTACAAACTTACA
1 ATCATGTTCAACTTGATTACAAACTTACA
36005179 A
1 A
36005180 ACATTCTATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.39, C:0.20, G:0.07, T:0.34
Consensus pattern (29 bp):
ATCATGTTCAACTTGATTACAAACTTACA
Found at i:36005927 original size:6 final size:6
Alignment explanation
Indices: 36005918--36005969 Score: 68
Period size: 6 Copynumber: 8.7 Consensus size: 6
36005908 TTTGTGTTTG
* * * *
36005918 TTTTCA TTTTCA TTTTCA TTTTCA TTTTTA TTTTTA TTTTTA TTTTTA
1 TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA
36005966 TTTT
1 TTTT
36005970 AACTTTAATA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (6 bp):
TTTTCA
Found at i:36005939 original size:18 final size:18
Alignment explanation
Indices: 36005918--36005969 Score: 77
Period size: 18 Copynumber: 2.9 Consensus size: 18
36005908 TTTGTGTTTG
*
36005918 TTTTCATTTTCATTTTCA
1 TTTTCATTTTTATTTTCA
*
36005936 TTTTCATTTTTATTTTTA
1 TTTTCATTTTTATTTTCA
*
36005954 TTTTTATTTTTATTTT
1 TTTTCATTTTTATTTT
36005970 AACTTTAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTTCATTTTTATTTTCA
Found at i:36010357 original size:3 final size:3
Alignment explanation
Indices: 36010349--36010397 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
36010339 TTTTTAATCC
*
36010349 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TGT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
36010397 T
1 T
36010398 CCTTCTTTAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:36014538 original size:18 final size:18
Alignment explanation
Indices: 36014515--36014556 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
36014505 AGAGTTACAC
*
36014515 GGGCACAGACACGGGTTG
1 GGGCACAGACACGGGCTG
36014533 GGGCACAGACACGGGCTG
1 GGGCACAGACACGGGCTG
36014551 GGGCAC
1 GGGCAC
36014557 GGCCGTGTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.21, C:0.26, G:0.45, T:0.07
Consensus pattern (18 bp):
GGGCACAGACACGGGCTG
Found at i:36023968 original size:127 final size:124
Alignment explanation
Indices: 36023673--36024240 Score: 744
Period size: 127 Copynumber: 4.5 Consensus size: 124
36023663 ATAAAATCAG
* * * * * * *
36023673 AGCAGGATGCT-TTATCAGAAGGATTTCTGAAGTCGCACCCACGTGTACGCGCTTTTGCTACAGT
1 AGCAGGATGCTATT-TGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
* * * *
36023737 AAGTCTTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAATGCTTCA
65 AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTAAAAAAACGCTTCA
* * * *
36023797 AGCAGGATACT-TTATGAGAAGAATTTGTGAAATCACGCCTTCGTGGATGCGCTTTTGCTACAGT
1 AGCAGGATGCTATT-TGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
** *
36023861 AGGTCCAAGAATAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAAACCCTTCA
65 AGGTCCTGGAA-AAATAATTTCGAGTTGACGTTTCTGAGCAAATAG--TAAAAAAACGCTTCA
*
36023924 AGCAGGATGTTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTA
1 AGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTA
* * * *
36023989 GGTCCTGGAATAAATAATTTTGAGTTGACCTTTCTGAGCAAATAGTTTAAAAACATGCTTCA
66 GGTCCTGGAA-AAATAATTTCGAGTTGACGTTTCTGAGCAAATAG--TAAAAAAACGCTTCA
* *
36024051 AGCAGGATGCTATTTGAGAAGAATGTGTGAAATCGTGCCCTCGTGGACGCGCTTTTGCTACAGTA
1 AGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTA
* * * *
36024116 GGTCTTGGAAAAATAATTTCGAGTTGATGTTTCTGAGCAAATAGTATAAAAACGCTTCT
66 GGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTAAAAAAACGCTTCA
* * * **
36024175 AGCTGGATGCTATTTGAGAATAATTTGTGAAATCGCGCCCTCGTAGAATCGCTTTTGCTACAGTA
1 AGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTA
36024240 G
66 G
36024241 CATGTTTGGG
Statistics
Matches: 392, Mismatches: 48, Indels: 8
0.88 0.11 0.02
Matches are distributed among these distances:
124 130 0.33
125 34 0.09
126 31 0.08
127 195 0.50
128 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.31
Consensus pattern (124 bp):
AGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTA
GGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTAAAAAAACGCTTCA
Found at i:36024234 original size:251 final size:250
Alignment explanation
Indices: 36023673--36024240 Score: 759
Period size: 251 Copynumber: 2.3 Consensus size: 250
36023663 ATAAAATCAG
* * * * * * *
36023673 AGCAGGATGCT-TTATCAGAAGGATTTCTGAAGTCGCACCCACGT-GTACGCGCTTTTGCTACAG
1 AGCAGGATGCTATT-TGAGAAGAATTTGTGAAATCGCGCCCTCGTAG-AAGCGCTTTTGCTACAG
* * *
36023736 TAAGTCTTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAATGCTTCAAGCA
64 TAGGTCCTGGAAAAATAATTTCGAGTTGACCTTTCTGAGCAAATAGTATAAAAATGCTTCAAGCA
* * *
36023801 GGATACTTTATGAGAAGAATTTGTGAAATCACGCCTTCGTGGATGCGCTTTTGCTACAGTAGGTC
129 GGATACTTTATGAGAAGAATGTGTGAAATCACGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTC
36023866 CAAGAATAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAAACCCTTCA
194 CAAGAATAAATAATTTCGAGTTGACGTTTCTGAGCAAATAG-TTAAAAAAACCCTTCA
* * *
36023924 AGCAGGATGTTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTA
1 AGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTAGAAGCGCTTTTGCTACAGTA
* *
36023989 GGTCCTGGAATAAATAATTTTGAGTTGACCTTTCTGAGCAAATAGTTTAAAAACATGCTTCAAGC
66 GGTCCTGGAA-AAATAATTTCGAGTTGACCTTTCTGAGCAAATAGTAT-AAAA-ATGCTTCAAGC
* **
36024054 AGGATGCTATT-TGAGAAGAATGTGTGAAATCGTGCCCTCGTGGACGCGCTTTTGCTACAGTAGG
128 AGGATACT-TTATGAGAAGAATGTGTGAAATCACGCCCTCGTGGACGCGCTTTTGCTACAGTAGG
*** * * * *
36024118 TCTTGGAA-AAATAATTTCGAGTTGATGTTTCTGAGCAAATAG-TATAAAAACGCTTCT
192 TCCAAGAATAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTAAAAAAACCCTTCA
* * *
36024175 AGCTGGATGCTATTTGAGAATAATTTGTGAAATCGCGCCCTCGTAGAATCGCTTTTGCTACAGTA
1 AGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTAGAAGCGCTTTTGCTACAGTA
36024240 G
66 G
36024241 CATGTTTGGG
Statistics
Matches: 280, Mismatches: 31, Indels: 12
0.87 0.10 0.04
Matches are distributed among these distances:
251 133 0.47
252 37 0.13
253 37 0.13
254 71 0.25
255 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.31
Consensus pattern (250 bp):
AGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTAGAAGCGCTTTTGCTACAGTA
GGTCCTGGAAAAATAATTTCGAGTTGACCTTTCTGAGCAAATAGTATAAAAATGCTTCAAGCAGG
ATACTTTATGAGAAGAATGTGTGAAATCACGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCCA
AGAATAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTAAAAAAACCCTTCA
Found at i:36027631 original size:95 final size:95
Alignment explanation
Indices: 36027468--36027649 Score: 364
Period size: 95 Copynumber: 1.9 Consensus size: 95
36027458 TATCCGAGAA
36027468 ATAGCCAGTCAACAGAAGTTGTGCGGATGGTGTAGGAATCTAGGCCATACAAGTCGATCATGCCC
1 ATAGCCAGTCAACAGAAGTTGTGCGGATGGTGTAGGAATCTAGGCCATACAAGTCGATCATGCCC
36027533 TAATTGCAATAGTTGAATGTAATTGTAAAC
66 TAATTGCAATAGTTGAATGTAATTGTAAAC
36027563 ATAGCCAGTCAACAGAAGTTGTGCGGATGGTGTAGGAATCTAGGCCATACAAGTCGATCATGCCC
1 ATAGCCAGTCAACAGAAGTTGTGCGGATGGTGTAGGAATCTAGGCCATACAAGTCGATCATGCCC
36027628 TAATTGCAATAGTTGAATGTAA
66 TAATTGCAATAGTTGAATGTAA
36027650 ATGAAAAAAA
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 87 1.00
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (95 bp):
ATAGCCAGTCAACAGAAGTTGTGCGGATGGTGTAGGAATCTAGGCCATACAAGTCGATCATGCCC
TAATTGCAATAGTTGAATGTAATTGTAAAC
Found at i:36027862 original size:21 final size:21
Alignment explanation
Indices: 36027836--36027958 Score: 147
Period size: 21 Copynumber: 5.8 Consensus size: 21
36027826 TCAAATTATA
* *
36027836 TTTAAGTTAAAGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGAGTT
*
36027857 TTTAAGTTAAGTGTTAGAGTT
1 TTTAAGTTAAGGGTTAGAGTT
* * *
36027878 TTTTATTTAAGGGTTACAGTT
1 TTTAAGTTAAGGGTTAGAGTT
* *
36027899 TTAAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGG-TTAGAGTT
* *
36027921 TTTAATTTAAGGGTTACAGTT
1 TTTAAGTTAAGGGTTAGAGTT
36027942 TTTAAGTTAAGGGTTAG
1 TTTAAGTTAAGGGTTAG
36027959 GGTTAGGGTT
Statistics
Matches: 83, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
21 66 0.80
22 17 0.20
ACGTcount: A:0.28, C:0.02, G:0.25, T:0.46
Consensus pattern (21 bp):
TTTAAGTTAAGGGTTAGAGTT
Found at i:36027936 original size:43 final size:42
Alignment explanation
Indices: 36027836--36027962 Score: 173
Period size: 43 Copynumber: 3.0 Consensus size: 42
36027826 TCAAATTATA
* * ** * *
36027836 TTTAAGTTAAAGGTTAGGGTTTTTAAGTTAAGTGTTAGAGTT
1 TTTAATTTAAGGGTTACAGTTTTTAAGTTAAGGGTTAGGGTT
* *
36027878 TTTTATTTAAGGGTTACAGTTTTAAAGTTAAGGGTTTAGGGTT
1 TTTAATTTAAGGGTTACAGTTTTTAAGTTAAGGG-TTAGGGTT
36027921 TTTAATTTAAGGGTTACAGTTTTTAAGTTAAGGGTTAGGGTT
1 TTTAATTTAAGGGTTACAGTTTTTAAGTTAAGGGTTAGGGTT
36027963 AGGGTTTTTA
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
42 35 0.47
43 39 0.53
ACGTcount: A:0.27, C:0.02, G:0.26, T:0.46
Consensus pattern (42 bp):
TTTAATTTAAGGGTTACAGTTTTTAAGTTAAGGGTTAGGGTT
Found at i:36027942 original size:64 final size:63
Alignment explanation
Indices: 36027839--36027957 Score: 175
Period size: 64 Copynumber: 1.9 Consensus size: 63
36027829 AATTATATTT
* * * *
36027839 AAGTTAAAGGTTAGGGTTTTTAAGTTAAGTGTTAGAGTTTTTTATTTAAGGGTTACAGTTTTA
1 AAGTTAAAGGTTAGGGTTTTTAAGTTAAGGGTTACAGTTTTTAAGTTAAGGGTTACAGTTTTA
* *
36027902 AAGTTAAGGGTTTAGGGTTTTTAATTTAAGGGTTACAGTTTTTAAGTTAAGGGTTA
1 AAGTTAAAGG-TTAGGGTTTTTAAGTTAAGGGTTACAGTTTTTAAGTTAAGGGTTA
36027958 GGGTTAGGGT
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
63 9 0.18
64 40 0.82
ACGTcount: A:0.29, C:0.02, G:0.25, T:0.45
Consensus pattern (63 bp):
AAGTTAAAGGTTAGGGTTTTTAAGTTAAGGGTTACAGTTTTTAAGTTAAGGGTTACAGTTTTA
Found at i:36027960 original size:27 final size:27
Alignment explanation
Indices: 36027930--36027983 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
36027920 TTTTAATTTA
36027930 AGGGTTACAGTTTTTAAGTTAAGGGTT
1 AGGGTTACAGTTTTTAAGTTAAGGGTT
** *
36027957 AGGGTTAGGGTTTTTAGGTTAAGGGTT
1 AGGGTTACAGTTTTTAAGTTAAGGGTT
36027984 TAAGGTTTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.22, C:0.02, G:0.35, T:0.41
Consensus pattern (27 bp):
AGGGTTACAGTTTTTAAGTTAAGGGTT
Found at i:36027989 original size:14 final size:14
Alignment explanation
Indices: 36027942--36027990 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
36027932 GGTTACAGTT
36027942 TTTAA-GTTAAGGG
1 TTTAAGGTTAAGGG
*
36027955 -TTAGGGTT-AGGG
1 TTTAAGGTTAAGGG
*
36027967 TTTTTAGGTTAAGGG
1 -TTTAAGGTTAAGGG
36027982 TTTAAGGTT
1 TTTAAGGTT
36027991 TGTCAATTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 7
0.72 0.10 0.18
Matches are distributed among these distances:
12 7 0.25
13 3 0.11
14 14 0.50
15 4 0.14
ACGTcount: A:0.22, C:0.00, G:0.35, T:0.43
Consensus pattern (14 bp):
TTTAAGGTTAAGGG
Found at i:36029421 original size:20 final size:20
Alignment explanation
Indices: 36029383--36029421 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
36029373 CTTTTATTTT
*
36029383 TAAAATATACATAATAATTG
1 TAAAATATACATAAAAATTG
36029403 TAAAATATA-ATATAAAATT
1 TAAAATATACATA-AAAATT
36029422 TACCTCGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (20 bp):
TAAAATATACATAAAAATTG
Found at i:36030403 original size:11 final size:11
Alignment explanation
Indices: 36030389--36030499 Score: 72
Period size: 11 Copynumber: 10.4 Consensus size: 11
36030379 GAGAAATTTA
*
36030389 AGAGGAACTTG
1 AGAGGAAATTG
36030400 AGAGGAAATTG
1 AGAGGAAATTG
**
36030411 AGATTAAA-T-
1 AGAGGAAATTG
* *
36030420 A-TGG-ATTTG
1 AGAGGAAATTG
36030429 AGA-GAAATTTG
1 AGAGGAAA-TTG
*
36030440 -GAAGGAATTTG
1 AG-AGGAAATTG
*
36030451 AGAGCAAATTG
1 AGAGGAAATTG
*
36030462 AGAGGAAATTT
1 AGAGGAAATTG
36030473 AGAGGAAATTG
1 AGAGGAAATTG
*
36030484 AAAGGAAATTTG
1 AGAGGAAA-TTG
36030496 AGAG
1 AGAG
36030500 AGGATTAGTT
Statistics
Matches: 74, Mismatches: 17, Indels: 17
0.69 0.16 0.16
Matches are distributed among these distances:
7 1 0.01
8 1 0.01
9 3 0.04
10 3 0.04
11 56 0.76
12 10 0.14
ACGTcount: A:0.43, C:0.02, G:0.31, T:0.24
Consensus pattern (11 bp):
AGAGGAAATTG
Found at i:36030409 original size:51 final size:51
Alignment explanation
Indices: 36030365--36030464 Score: 139
Period size: 51 Copynumber: 2.0 Consensus size: 51
36030355 AATTATTTAA
*
36030365 AAATAGGGATTTAAGAGAAATTTA-AGAGGAACTTGAGAGGAAATTGAGATT
1 AAATAGGGATTTAAGAGAAATTTAGA-AGGAACTTGAGAGCAAATTGAGATT
* * * *
36030416 AAATATGGATTTGAGAGAAATTTGGAAGGAATTTGAGAGCAAATTGAGA
1 AAATAGGGATTTAAGAGAAATTTAGAAGGAACTTGAGAGCAAATTGAGA
36030465 GGAAATTTAG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
51 42 0.98
52 1 0.02
ACGTcount: A:0.44, C:0.02, G:0.28, T:0.26
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTAGAAGGAACTTGAGAGCAAATTGAGATT
Found at i:36030449 original size:22 final size:22
Alignment explanation
Indices: 36030424--36030500 Score: 88
Period size: 22 Copynumber: 3.5 Consensus size: 22
36030414 TTAAATATGG
36030424 ATTTGAGAGAAATTTGGAAGG-A
1 ATTTGAGAGAAA-TTGGAAGGAA
36030446 ATTTGAGAGCAAATT-GAGAGGAA
1 ATTTGAGAG-AAATTGGA-AGGAA
*
36030469 ATTT-AGAGGAAATTGAAAGGAA
1 ATTTGAGA-GAAATTGGAAGGAA
36030491 ATTTGAGAGA
1 ATTTGAGAGA
36030501 GGATTAGTTT
Statistics
Matches: 48, Mismatches: 1, Indels: 12
0.79 0.02 0.20
Matches are distributed among these distances:
21 2 0.04
22 33 0.69
23 13 0.27
ACGTcount: A:0.44, C:0.01, G:0.30, T:0.25
Consensus pattern (22 bp):
ATTTGAGAGAAATTGGAAGGAA
Found at i:36030479 original size:33 final size:35
Alignment explanation
Indices: 36030424--36030499 Score: 95
Period size: 33 Copynumber: 2.3 Consensus size: 35
36030414 TTAAATATGG
* * *
36030424 ATTTGAGA-GAAATTTGGAAGGAATTTGAGAGCAA
1 ATTTGAGAGGAAATTTAGAAGGAAATTGAAAGCAA
*
36030458 A-TTGAGAGGAAATTTAG-AGGAAATTGAAAGGAA
1 ATTTGAGAGGAAATTTAGAAGGAAATTGAAAGCAA
36030491 ATTTGAGAG
1 ATTTGAGAG
36030500 AGGATTAGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
33 20 0.56
34 16 0.44
ACGTcount: A:0.43, C:0.01, G:0.30, T:0.25
Consensus pattern (35 bp):
ATTTGAGAGGAAATTTAGAAGGAAATTGAAAGCAA
Found at i:36032046 original size:16 final size:16
Alignment explanation
Indices: 36032025--36032073 Score: 71
Period size: 16 Copynumber: 3.1 Consensus size: 16
36032015 TTCGCTGTAT
36032025 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
* *
36032041 TGGAATAGAAGCATAA
1 TGGAATAGAGGCGTAA
*
36032057 TGGAATAGAGGTGTAA
1 TGGAATAGAGGCGTAA
36032073 T
1 T
36032074 AGCAAATCAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.41, C:0.04, G:0.33, T:0.22
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:36037478 original size:18 final size:18
Alignment explanation
Indices: 36037455--36037497 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
36037445 GAATAAGTTT
36037455 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
*
36037473 TTAATTAAAAATTTTAAA
1 TTAATTAAAAAATTTAAA
36037491 TTAATTA
1 TTAATTA
36037498 CACCTTGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:36046398 original size:3 final size:3
Alignment explanation
Indices: 36046390--36046417 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
36046380 GGTAACTTCT
36046390 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
36046418 AATTTTTGGA
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):
TTA
Found at i:36052239 original size:8 final size:8
Alignment explanation
Indices: 36052220--36052258 Score: 55
Period size: 7 Copynumber: 5.1 Consensus size: 8
36052210 ATTTCCCGAA
36052220 AAAAAATT
1 AAAAAATT
36052228 -AAAAATT
1 AAAAAATT
36052235 -AAAAATT
1 AAAAAATT
*
36052242 AAAAAACT
1 AAAAAATT
36052250 AAAAAATT
1 AAAAAATT
36052258 A
1 A
36052259 TATAAGAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
7 14 0.50
8 14 0.50
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (8 bp):
AAAAAATT
Found at i:36052253 original size:14 final size:14
Alignment explanation
Indices: 36052221--36052254 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
36052211 TTTCCCGAAA
*
36052221 AAAAATTAAAAATT
1 AAAAATTAAAAACT
36052235 AAAAATTAAAAAACT
1 AAAAATT-AAAAACT
36052250 AAAAA
1 AAAAA
36052255 ATTATATAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (14 bp):
AAAAATTAAAAACT
Found at i:36071683 original size:20 final size:20
Alignment explanation
Indices: 36071658--36071697 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
36071648 GTAATTAAAA
36071658 CTTAACCAAAATGCTTGTGT
1 CTTAACCAAAATGCTTGTGT
36071678 CTTAACCAAAATGCTTGTGT
1 CTTAACCAAAATGCTTGTGT
36071698 TCAAGCTCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (20 bp):
CTTAACCAAAATGCTTGTGT
Found at i:36081469 original size:14 final size:14
Alignment explanation
Indices: 36081450--36081489 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
36081440 TTGATTGCCA
36081450 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
36081464 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
36081478 GGAAAATGTTTT
1 GTAAAATGTTTT
36081490 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:36081498 original size:20 final size:20
Alignment explanation
Indices: 36081473--36081512 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
36081463 CGTAAAATGA
*
36081473 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
36081493 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
36081513 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:36081502 original size:34 final size:35
Alignment explanation
Indices: 36081458--36081524 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
36081448 CAGTAAAATG
*
36081458 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
36081492 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
36081525 CTAGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:36084347 original size:18 final size:18
Alignment explanation
Indices: 36084326--36084376 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
36084316 AGGAATGAAG
36084326 GAAGGGAGAAGAATGGAT
1 GAAGGGAGAAGAATGGAT
*** *
36084344 GAAGGGAGCCTACTGGAT
1 GAAGGGAGAAGAATGGAT
36084362 GAAGGGAGAAGAATG
1 GAAGGGAGAAGAATG
36084377 CCTGAGAGCT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.39, C:0.06, G:0.43, T:0.12
Consensus pattern (18 bp):
GAAGGGAGAAGAATGGAT
Found at i:36092743 original size:5 final size:5
Alignment explanation
Indices: 36092733--36092759 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
36092723 TATTACATTC
36092733 AAACA AAACA AAACA AAACA AAACA AA
1 AAACA AAACA AAACA AAACA AAACA AA
36092760 TAATTTGATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.19, G:0.00, T:0.00
Consensus pattern (5 bp):
AAACA
Found at i:36094174 original size:24 final size:24
Alignment explanation
Indices: 36094145--36094191 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
36094135 TAAATTTAAA
* *
36094145 AATAAAAATTTGATTTAAAGGGTG
1 AATAAAAATCTGAATTAAAGGGTG
36094169 AATAAAAATCTGAATTAAAGGGT
1 AATAAAAATCTGAATTAAAGGGT
36094192 TAAGATTGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.49, C:0.02, G:0.19, T:0.30
Consensus pattern (24 bp):
AATAAAAATCTGAATTAAAGGGTG
Found at i:36096552 original size:18 final size:17
Alignment explanation
Indices: 36096520--36096553 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
36096510 TCAGGAAAAC
*
36096520 AATTATATTCTTTCCAA
1 AATTATATACTTTCCAA
36096537 AATTATATCACTTTCCA
1 AATTATAT-ACTTTCCA
36096554 TATCCTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.35, C:0.21, G:0.00, T:0.44
Consensus pattern (17 bp):
AATTATATACTTTCCAA
Found at i:36104362 original size:34 final size:34
Alignment explanation
Indices: 36104291--36104362 Score: 81
Period size: 34 Copynumber: 2.1 Consensus size: 34
36104281 AGCATGCCTT
* * *
36104291 TTGCTACTAAATCAATCTGTTAGAGGCATAATAA
1 TTGCCACTAAATCAAGCTGTTAGAAGCATAATAA
* * * *
36104325 TTGCCACTAGATCAAGCTGTTATAAGCCTAATGA
1 TTGCCACTAAATCAAGCTGTTAGAAGCATAATAA
36104359 TTGC
1 TTGC
36104363 TATGTTGGAA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (34 bp):
TTGCCACTAAATCAAGCTGTTAGAAGCATAATAA
Found at i:36107883 original size:24 final size:23
Alignment explanation
Indices: 36107856--36107914 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 23
36107846 ATAATCTATA
36107856 ATAAATTTAAAACTATAGTAT-ATG
1 ATAAATTTAAAACTAT-G-ATCATG
*
36107880 ATAAATTTTAAACTATGATGCATG
1 ATAAATTTAAAACTATGAT-CATG
36107904 ATAAATTTAAA
1 ATAAATTTAAA
36107915 TAATATTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
22 2 0.06
23 1 0.03
24 28 0.90
ACGTcount: A:0.49, C:0.05, G:0.08, T:0.37
Consensus pattern (23 bp):
ATAAATTTAAAACTATGATCATG
Found at i:36108010 original size:47 final size:45
Alignment explanation
Indices: 36107912--36108014 Score: 118
Period size: 47 Copynumber: 2.2 Consensus size: 45
36107902 TGATAAATTT
* * * * * *
36107912 AAATAATATTAATGGCAATTTAAAATAATAGTATATTATATATTA
1 AAATAATACTAATGGAAATTTAAAACAATAGTAGATTAAATACTA
36107957 AAATAATACTAATGAGAAATTTAAAACAAT-GTTAAGATTAAATACTA
1 AAATAATACTAATG-GAAATTTAAAACAATAG-T-AGATTAAATACTA
36108004 AAATAATACTA
1 AAATAATACTA
36108015 TATTTAATAA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
45 14 0.29
46 14 0.29
47 21 0.43
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.34
Consensus pattern (45 bp):
AAATAATACTAATGGAAATTTAAAACAATAGTAGATTAAATACTA
Found at i:36108980 original size:18 final size:18
Alignment explanation
Indices: 36108957--36108998 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
36108947 TCTGTTATTC
36108957 GTTTCTTTCTTTTTTGTT
1 GTTTCTTTCTTTTTTGTT
36108975 GTTTCTTTCTTTTTTGTT
1 GTTTCTTTCTTTTTTGTT
36108993 GTTTCT
1 GTTTCT
36108999 ATTGCGTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.00, C:0.12, G:0.12, T:0.76
Consensus pattern (18 bp):
GTTTCTTTCTTTTTTGTT
Found at i:36109632 original size:50 final size:49
Alignment explanation
Indices: 36109578--36109675 Score: 115
Period size: 50 Copynumber: 2.0 Consensus size: 49
36109568 AATACGCTCC
* * * *
36109578 ACTACACCGTCAGGGAAGTATGATTCACTGTTGTAGCTTCAATCTTTTTA
1 ACTACAACGTCAGGGAAGCAAGATTCACCGTTGTAGCTTCAAT-TTTTTA
* * * *
36109628 ACTACAATGTCGGGGACGCAAGATTCGCCGTTGTAGCTTCAATTTTTT
1 ACTACAACGTCAGGGAAGCAAGATTCACCGTTGTAGCTTCAATTTTTT
36109676 CCACTGCATC
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
49 5 0.12
50 35 0.88
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.35
Consensus pattern (49 bp):
ACTACAACGTCAGGGAAGCAAGATTCACCGTTGTAGCTTCAATTTTTTA
Found at i:36109990 original size:44 final size:44
Alignment explanation
Indices: 36109938--36110092 Score: 136
Period size: 44 Copynumber: 3.5 Consensus size: 44
36109928 ATCCACTCTG
* * *
36109938 CTGCAACTTCAGAGAGATAAGATTTATTA-TTTGAATCCGCTCCA
1 CTGCAACTTCAGGGAGATAAGATTTACTACTTT-AATCAGCTCCA
* *
36109982 CTGCAACTTCAGGGAGATAGGA-TTACTAGCTTTAATTAGCTCCA
1 CTGCAACTTCAGGGAGATAAGATTTACTA-CTTTAATCAGCTCCA
* * * * * *
36110026 CTACAACCTCAGGGAGATAAGATTCACCACCTTCAATCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGATTTACTA-CTTTAATCAGCTCCA
* **
36110071 CTACTGC-TCAGGGAGATAAGAT
1 CTGCAACTTCAGGGAGATAAGAT
36110093 CTGTAATTCT
Statistics
Matches: 92, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
43 5 0.05
44 63 0.68
45 24 0.26
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (44 bp):
CTGCAACTTCAGGGAGATAAGATTTACTACTTTAATCAGCTCCA
Found at i:36111525 original size:50 final size:50
Alignment explanation
Indices: 36111471--36111566 Score: 151
Period size: 50 Copynumber: 1.9 Consensus size: 50
36111461 TTTTGATTTA
* *
36111471 TTTTTATTT-TTT-GGATTCAAAGCGCCTTTTGCGGGTTTTCACCTTGGTC
1 TTTTT-TTTCTTTAGGAATCAAAGCGCCCTTTGCGGGTTTTCACCTTGGTC
36111520 TTTTTTTTCTTTAGGAATCAAAGCGCCCTTTGCGGGTTTTCACCTTG
1 TTTTTTTTCTTTAGGAATCAAAGCGCCCTTTGCGGGTTTTCACCTTG
36111567 ATCCCTTCTC
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
48 3 0.07
49 8 0.19
50 32 0.74
ACGTcount: A:0.14, C:0.20, G:0.20, T:0.47
Consensus pattern (50 bp):
TTTTTTTTCTTTAGGAATCAAAGCGCCCTTTGCGGGTTTTCACCTTGGTC
Found at i:36112388 original size:15 final size:15
Alignment explanation
Indices: 36112370--36112450 Score: 76
Period size: 15 Copynumber: 5.3 Consensus size: 15
36112360 TTTTTTTTCA
36112370 TTTTGATTTTGATTT
1 TTTTGATTTTGATTT
* *
36112385 TTTTCATTTT-TTTGAT
1 TTTTGATTTTGATT--T
*
36112401 TTTTGATTTTCATTT
1 TTTTGATTTTGATTT
36112416 TTTTGATTTTG-TTT
1 TTTTGATTTTGATTT
*
36112430 TTTTTATTGGTTGATTT
1 TTTTGATT--TTGATTT
36112447 TTTT
1 TTTT
36112451 ATACTGAATC
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
14 12 0.22
15 20 0.37
16 13 0.24
17 9 0.17
ACGTcount: A:0.11, C:0.02, G:0.11, T:0.75
Consensus pattern (15 bp):
TTTTGATTTTGATTT
Found at i:36112388 original size:22 final size:21
Alignment explanation
Indices: 36112360--36112447 Score: 72
Period size: 22 Copynumber: 3.9 Consensus size: 21
36112350 GCCTCTCCTT
36112360 TTTTTTTTCATTTTGATTTTGA
1 TTTTTTTT-ATTTTGATTTTGA
*
36112382 TTTTTTTCATTTTTTTGATTTTTGA
1 -TTTTTT--TTATTTTGA-TTTTGA
*
36112407 TTTTCATTT-TTTTGATTTTG-
1 TTTT-TTTTATTTTGATTTTGA
36112427 TTTTTTTTATTGGTTGATTTT
1 TTTTTTTTATT--TTGATTTT
36112448 TTTATACTGA
Statistics
Matches: 55, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
19 3 0.05
20 6 0.11
21 5 0.09
22 14 0.25
23 8 0.15
24 10 0.18
25 9 0.16
ACGTcount: A:0.11, C:0.03, G:0.10, T:0.75
Consensus pattern (21 bp):
TTTTTTTTATTTTGATTTTGA
Found at i:36112405 original size:31 final size:30
Alignment explanation
Indices: 36112361--36112450 Score: 96
Period size: 31 Copynumber: 2.9 Consensus size: 30
36112351 CCTCTCCTTT
36112361 TTTTTTTCA-TTTTGATTTTGATTTTTTTCA
1 TTTTTTT-ATTTTTGATTTTGATTTTTTTCA
* *
36112391 TTTTTTTGATTTTTGATTTTCATTTTTTTGA
1 TTTTTTT-ATTTTTGATTTTGATTTTTTTCA
36112422 TTTTGTTT-TTTTT-ATTGGTTGATTTTTTT
1 TTTT-TTTATTTTTGATT--TTGATTTTTTT
36112451 ATACTGAATC
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
29 3 0.06
30 13 0.25
31 33 0.63
32 3 0.06
ACGTcount: A:0.11, C:0.03, G:0.10, T:0.76
Consensus pattern (30 bp):
TTTTTTTATTTTTGATTTTGATTTTTTTCA
Found at i:36114397 original size:21 final size:20
Alignment explanation
Indices: 36114373--36114411 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
36114363 ATCTGTATTT
36114373 ACATTCGCTCTAATTTCTCCA
1 ACATTCGCTCT-ATTTCTCCA
* *
36114394 ACATTTGGTCTATTTCTC
1 ACATTCGCTCTATTTCTC
36114412 TAGTATTTGC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.21, C:0.28, G:0.08, T:0.44
Consensus pattern (20 bp):
ACATTCGCTCTATTTCTCCA
Found at i:36117992 original size:14 final size:14
Alignment explanation
Indices: 36117973--36118002 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
36117963 TACGGAGGTC
36117973 GATGTGGCAGTACG
1 GATGTGGCAGTACG
*
36117987 GATGTGGCCGTACG
1 GATGTGGCAGTACG
36118001 GA
1 GA
36118003 GGTGCGCGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.20, C:0.17, G:0.43, T:0.20
Consensus pattern (14 bp):
GATGTGGCAGTACG
Found at i:36118603 original size:13 final size:14
Alignment explanation
Indices: 36118585--36118619 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
36118575 GAAAAAAACT
36118585 AAAAATAA-TTTTA
1 AAAAATAATTTTTA
36118598 AAAAATAATTTTTA
1 AAAAATAATTTTTA
36118612 AAAAATAA
1 AAAAATAA
36118620 AAGTATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 8 0.38
14 13 0.62
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
AAAAATAATTTTTA
Found at i:36121766 original size:42 final size:42
Alignment explanation
Indices: 36121646--36121776 Score: 120
Period size: 42 Copynumber: 3.1 Consensus size: 42
36121636 GTTGACTTTT
* * * ** * *
36121646 CGTTTAGCTCTTACGAGCTTCCGTTCAATTCATATGAGTTTC
1 CGTTAAGCTTTTACGAGCTTCTGTTCAACCCTTATGGGTTTC
* * * * *
36121688 CGTTCAGCTATTTTA-GAGCTTCTATTTAACCTTTATGGGTTTT
1 CGTTAAGC--TTTTACGAGCTTCTGTTCAACCCTTATGGGTTTC
*
36121731 CGTTAAGCTTTTACGAGCTTTTGTTCAACCCTTATGGGTTTC
1 CGTTAAGCTTTTACGAGCTTCTGTTCAACCCTTATGGGTTTC
36121773 CGTT
1 CGTT
36121777 TAGCACTTAT
Statistics
Matches: 69, Mismatches: 17, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
41 5 0.07
42 34 0.49
43 26 0.38
44 4 0.06
ACGTcount: A:0.18, C:0.21, G:0.18, T:0.44
Consensus pattern (42 bp):
CGTTAAGCTTTTACGAGCTTCTGTTCAACCCTTATGGGTTTC
Found at i:36122378 original size:20 final size:20
Alignment explanation
Indices: 36122353--36122400 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
36122343 GTGATTGAGA
36122353 AAGTATGATATATTTAGCAT
1 AAGTATGATATATTTAGCAT
36122373 AAGTATGATATATTTAGCAT
1 AAGTATGATATATTTAGCAT
36122393 AAGTATGA
1 AAGTATGA
36122401 GAATATGTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.42, C:0.04, G:0.17, T:0.38
Consensus pattern (20 bp):
AAGTATGATATATTTAGCAT
Found at i:36123325 original size:28 final size:28
Alignment explanation
Indices: 36123281--36123343 Score: 92
Period size: 28 Copynumber: 2.2 Consensus size: 28
36123271 GTTTCATATT
36123281 TATCAATCAACACAATGCCAATGA-AAGGA
1 TATC-ATCAACACAATGCCAATGAGAA-GA
*
36123310 TATCATCAACATAATGCCAATGAGAAGA
1 TATCATCAACACAATGCCAATGAGAAGA
36123338 TATCAT
1 TATCAT
36123344 TAACTCTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
28 26 0.81
29 6 0.19
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (28 bp):
TATCATCAACACAATGCCAATGAGAAGA
Found at i:36126689 original size:15 final size:15
Alignment explanation
Indices: 36126665--36126696 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
36126655 TATGCATGCA
*
36126665 AAATATAAAAGACAT
1 AAATACAAAAGACAT
36126680 AAATACAAAAGACAT
1 AAATACAAAAGACAT
36126695 AA
1 AA
36126697 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:36127068 original size:17 final size:17
Alignment explanation
Indices: 36127046--36127078 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
36127036 CAAAAACCTT
36127046 GGTGGTTCGTTCACCCC
1 GGTGGTTCGTTCACCCC
36127063 GGTGGTTCGTTCACCC
1 GGTGGTTCGTTCACCC
36127079 ATTTTATTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.06, C:0.33, G:0.30, T:0.30
Consensus pattern (17 bp):
GGTGGTTCGTTCACCCC
Found at i:36129693 original size:28 final size:28
Alignment explanation
Indices: 36129653--36129764 Score: 111
Period size: 29 Copynumber: 3.9 Consensus size: 28
36129643 TTCTATAAAG
* ** *
36129653 AGTTTGCCACAAAGGCTTTTTTTTTTAT
1 AGTTCGCCACAAAGGCTTCCTTTTTCAT
36129681 AGTTCGCCACAAAAGGCTTCCTTTTTCAT
1 AGTTCGCCAC-AAAGGCTTCCTTTTTCAT
*
36129710 A-TATCGCCACAAAGGCTTCATTTTTTCAT
1 AGT-TCGCCACAAAGGCTTC-CTTTTTCAT
* *
36129739 AGATT-GCCATAAAGACTTCCTTTTTC
1 AG-TTCGCCACAAAGGCTTCCTTTTTC
36129765 TGGCATGTTT
Statistics
Matches: 71, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
28 25 0.35
29 44 0.62
30 1 0.01
31 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.12, T:0.40
Consensus pattern (28 bp):
AGTTCGCCACAAAGGCTTCCTTTTTCAT
Found at i:36135572 original size:34 final size:34
Alignment explanation
Indices: 36135529--36135596 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
36135519 TCTTCTGCAG
36135529 TTCAATTTTCACTATTTACTATAAACTTAACCTT
1 TTCAATTTTCACTATTTACTATAAACTTAACCTT
* *
36135563 TTCAATTTTCACTATTTACTATAAATTTAGCCTT
1 TTCAATTTTCACTATTTACTATAAACTTAACCTT
36135597 AATAAATGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.31, C:0.19, G:0.01, T:0.49
Consensus pattern (34 bp):
TTCAATTTTCACTATTTACTATAAACTTAACCTT
Found at i:36140585 original size:20 final size:20
Alignment explanation
Indices: 36140560--36140599 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
36140550 TTCACCTCAT
*
36140560 GCATCGCATCATATGCATTA
1 GCATCGCATCATATACATTA
*
36140580 GCATCGCATTATATACATTA
1 GCATCGCATCATATACATTA
36140600 AAGACCTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.33
Consensus pattern (20 bp):
GCATCGCATCATATACATTA
Found at i:36141147 original size:48 final size:48
Alignment explanation
Indices: 36141076--36141171 Score: 174
Period size: 48 Copynumber: 2.0 Consensus size: 48
36141066 AAATAATCAT
*
36141076 ATTAACTCTGCCATTCTTGACTTTGACGAAGTGGTTGAGAAGGAAAGA
1 ATTAACTCTGCCATTCCTGACTTTGACGAAGTGGTTGAGAAGGAAAGA
*
36141124 ATTAACTCTGCCATTCCTGACTTTGATGAAGTGGTTGAGAAGGAAAGA
1 ATTAACTCTGCCATTCCTGACTTTGACGAAGTGGTTGAGAAGGAAAGA
36141172 CTGAAGGAAG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (48 bp):
ATTAACTCTGCCATTCCTGACTTTGACGAAGTGGTTGAGAAGGAAAGA
Found at i:36148580 original size:45 final size:45
Alignment explanation
Indices: 36148479--36149138 Score: 312
Period size: 44 Copynumber: 15.0 Consensus size: 45
36148469 GTTGAAAAGC
* * * * * * *
36148479 AGCAGATCCTGTCTTCCTATATTGGTAGTGAAGTGGATCGAATAT
1 AGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAA
* *
36148524 A-CAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCGAAGAA
1 AGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAA
*** * * *
36148568 AGCAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAA
36148612 AGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAA
1 AGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAA
* * *
36148657 AACAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCGAAGAA
1 AGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAA
* *** * * *
36148702 AGTAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAA
* * * * * * * * *
36148746 AGTAGGTCATGTCTTCCTATA-TCGGTAGCGAAGTGGATCGAATAT
1 AGCAGATCTTGTCTTCCCATACT-GGTGGTGAAGTAGATCGAAGAA
* * * ** * *
36148791 A-CATATTTTATCTTCCCATACTGGTGGCAAAGTAGATTGAAGATT
1 AGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGA-A
* * * * * *
36148836 A-CAGATCTTG-CCTCCC-TAAGC-AGTAGTGGAGCAGATCGAAGAT
1 AGCAGATCTTGTCTTCCCAT-A-CTGGTGGTGAAGTAGATCGAAGAA
* * ** * * *
36148879 GGCAGAT-TT-TACCTCCC-TGAAGCT-GCAGTGGAGTATATTGAAG--
1 AGCAGATCTTGT-CTTCCCAT--A-CTGGTGGTGAAGTAGATCGAAGAA
* ** ** *
36148922 -CCAG-TAAT-TC-T---AT--T-GACGTGAAGTAGATCGGAGAA
1 AGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAA
* *** ** * *
36148957 AACAGATCTTGTCTTCATGTACTGG-CATGAAGTAGATCAAAAATA
1 AGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGA-A
*
36149002 AGCAGATCTTGTCTTCCCATACTAGTGGTGAAGTAGATCGAAGAAAAAA
1 AGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAG----AA
*** * * *
36149051 AGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATAGAAGAA
1 AGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAA
** *
36149095 AATAGATCTTGTCTTCCCATATTGGTGGTGAAGTAGATCGAAGA
1 AGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGA
36149139 TACAAGTCTT
Statistics
Matches: 469, Mismatches: 112, Indels: 68
0.72 0.17 0.10
Matches are distributed among these distances:
33 14 0.03
36 3 0.01
37 2 0.00
38 3 0.01
39 1 0.00
40 1 0.00
41 2 0.00
42 6 0.01
43 5 0.01
44 203 0.43
45 179 0.38
46 13 0.03
48 15 0.03
49 21 0.04
50 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (45 bp):
AGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAA
Found at i:36148581 original size:89 final size:90
Alignment explanation
Indices: 36148479--36148885 Score: 353
Period size: 89 Copynumber: 4.6 Consensus size: 90
36148469 GTTGAAAAGC
* * * * *
36148479 AGCAGATCCTGTCTTCCTATATTGGTAGTGAAGTGGATCGAATATA-CAGATCTTGTCTCCCCAT
1 AGCAGATCTTGTCTTCCTATACTGGTAGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCAT
*
36148543 ACTGGTGGTGGAGTAGATCGAAGAA
66 ACTGGTGGTGAAGTAGATCGAAGAA
* * * *
36148568 AGCAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCAT
1 AGCAGATCTTGTCTTCCTATACTGGTAGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCAT
36148632 ACTGGTGGTGAAGTAGATCGAAGAA
66 ACTGGTGGTGAAGTAGATCGAAGAA
* * * * * * * ***
36148657 AACAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGT
1 AGCAGATCTTGTCTTCCTATACTGGTAGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCAT
* * *
36148722 ACTGG-CGTGAAGTAGATCAAAGAT
66 ACTGGTGGTGAAGTAGATCGAAGAA
* * * * * * * * *
36148746 AGTAGGTCATGTCTTCCTATA-TCGGTAGCGAAGTGGATCGAATATA-CATATTTTATCTTCCCA
1 AGCAGATCTTGTCTTCCTATACT-GGTAGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCA
** * *
36148809 TACTGGTGGCAAAGTAGATTGAAGATT
65 TACTGGTGGTGAAGTAGATCGAAGA-A
* * * * * *
36148836 A-CAGATCTTGCCTCCCTA-AGC-AGTAGTGGAGCAGATCGAAGATGGCAGAT
1 AGCAGATCTTGTCTTCCTATA-CTGGTAGTGAAGTAGATCGAAGATAGCAGAT
36148886 TTTACCTCCC
Statistics
Matches: 247, Mismatches: 63, Indels: 16
0.76 0.19 0.05
Matches are distributed among these distances:
88 50 0.20
89 159 0.64
90 38 0.15
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (90 bp):
AGCAGATCTTGTCTTCCTATACTGGTAGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCAT
ACTGGTGGTGAAGTAGATCGAAGAA
Found at i:36148687 original size:134 final size:133
Alignment explanation
Indices: 36148479--36148817 Score: 473
Period size: 134 Copynumber: 2.5 Consensus size: 133
36148469 GTTGAAAAGC
* * * * * *
36148479 AGCAGATCCTGTCTTCCTATATTGGTAGTGAAGTGGATCGAATATACAGATCTTGTCTCCCCATA
1 AGCAGATCATGTCTTCCCATACTGGTAGTGAAGTAGATCGAAAAAACAGATCTTGTCTCCCCATA
36148544 CTGGTGGTGGAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAA
66 CTGGTGGTGGAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAA
36148609 GAT
131 GAT
* *
36148612 AGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAACAGATCTTGTCTCCCCAT
1 AGCAGATCATGTCTTCCCATACTGGTAGTGAAGTAGATCGAA-AAAACAGATCTTGTCTCCCCAT
*
36148677 ACTGGTGGTGGAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAA
65 ACTGGTGGTGGAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAA
36148742 AGAT
130 AGAT
* * * * * * * * * * *
36148746 AGTAGGTCATGTCTTCCTATA-TCGGTAGCGAAGTGGATCGAATATACATATTTTATCTTCCCAT
1 AGCAGATCATGTCTTCCCATACT-GGTAGTGAAGTAGATCGAAAAAACAGATCTTGTCTCCCCAT
36148810 ACTGGTGG
65 ACTGGTGG
36148818 CAAAGTAGAT
Statistics
Matches: 183, Mismatches: 21, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
133 62 0.34
134 121 0.66
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (133 bp):
AGCAGATCATGTCTTCCCATACTGGTAGTGAAGTAGATCGAAAAAACAGATCTTGTCTCCCCATA
CTGGTGGTGGAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAA
GAT
Found at i:36149060 original size:49 final size:47
Alignment explanation
Indices: 36148939--36149133 Score: 160
Period size: 45 Copynumber: 4.3 Consensus size: 47
36148929 TTCTATTGAC
* * * *
36148939 GTGAAGTAGATC-GGAGAAAA-CAGATCTTGTCTT--CAT-GTACTG
1 GTGAAGTAGATCAGAAAAAAAGCAGATCTTGTCTTCCCATACTAGTG
*
36148981 GCATGAAGTAGATCA-AAAATAAGCAGATCTTGTCTTCCCATACTAGTG
1 G--TGAAGTAGATCAGAAAAAAAGCAGATCTTGTCTTCCCATACTAGTG
* *
36149029 GTGAAGTAGATCGAAGAAAAAAAGCAGATCTTGTCTT--CAT-GTATTGG
1 GTGAAGTAGATC--AGAAAAAAAGCAGATCTTGTCTTCCCATACTAGT-G
* * * *
36149076 CGTGAAGTAGAT-AGAAGAAAA-TAGATCTTGTCTTCCCATATTGGTG
1 -GTGAAGTAGATCAGAAAAAAAGCAGATCTTGTCTTCCCATACTAGTG
36149122 GTGAAGTAGATC
1 GTGAAGTAGATC
36149134 GAAGATACAA
Statistics
Matches: 124, Mismatches: 13, Indels: 28
0.75 0.08 0.17
Matches are distributed among these distances:
42 1 0.01
44 27 0.22
45 32 0.26
46 18 0.15
47 9 0.07
48 17 0.14
49 20 0.16
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (47 bp):
GTGAAGTAGATCAGAAAAAAAGCAGATCTTGTCTTCCCATACTAGTG
Found at i:36149094 original size:48 final size:47
Alignment explanation
Indices: 36148955--36149096 Score: 157
Period size: 49 Copynumber: 3.0 Consensus size: 47
36148945 TAGATCGGAG
* *
36148955 AAAA-CAGATCTTGTCTTCATGTACTGGCATGAAGTAGAT-CA-AAA
1 AAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATGAAGAAA
* ***
36148999 ATAAGCAGATCTTGTCTTCCCATACTAGTG-GTGAAGTAGATCGAAGAAA
1 AAAAGCAGATCTTGTCTTCATGTACT-G-GCGTGAAGTAGAT-GAAGAAA
*
36149048 AAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATAGAAGAAA
1 AAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGAT-GAAGAAA
36149096 A
1 A
36149097 TAGATCTTGT
Statistics
Matches: 79, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
44 3 0.04
45 18 0.23
46 11 0.14
47 2 0.03
48 21 0.27
49 24 0.30
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATGAAGAAA
Found at i:36149129 original size:93 final size:93
Alignment explanation
Indices: 36148939--36149138 Score: 277
Period size: 93 Copynumber: 2.2 Consensus size: 93
36148929 TTCTATTGAC
*
36148939 GTGAAGTAGATCG--G-AGAAAACAGATCTTGTCTTCATGTACTGGCATGAAGTAGATCAAAAAT
1 GTGAAGTAGATCGAAGAAAAAAACAGATCTTGTCTTCATGTACTGGCATGAAGTAGATCAAAAAT
36149001 AAGCAGATCTTGTCTTCCCATACTAGTG
66 AAGCAGATCTTGTCTTCCCATACTAGTG
* *
36149029 GTGAAGTAGATCGAAGAAAAAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGAT-AGAAG
1 GTGAAGTAGATCGAAGAAAAAAA-CAGATCTTGTCTTCATGTACTGGCATGAAGTAGATCA-AA-
* * *
36149093 AA-AA-TAGATCTTGTCTTCCCATATTGGTG
63 AATAAGCAGATCTTGTCTTCCCATACTAGTG
36149122 GTGAAGTAGATCGAAGA
1 GTGAAGTAGATCGAAGA
36149139 TACAAGTCTT
Statistics
Matches: 98, Mismatches: 6, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
90 13 0.13
92 1 0.01
93 45 0.46
94 37 0.38
95 2 0.02
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (93 bp):
GTGAAGTAGATCGAAGAAAAAAACAGATCTTGTCTTCATGTACTGGCATGAAGTAGATCAAAAAT
AAGCAGATCTTGTCTTCCCATACTAGTG
Found at i:36155072 original size:23 final size:23
Alignment explanation
Indices: 36155028--36155074 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
36155018 ATATCTATAT
* * *
36155028 TGTGAACTTTAATACGTGTTTTC
1 TGTGAAATTTAACACGTATTTTC
*
36155051 TGTGAAATTTAACATGTATTTTC
1 TGTGAAATTTAACACGTATTTTC
36155074 T
1 T
36155075 TGATGAATCG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.26, C:0.11, G:0.15, T:0.49
Consensus pattern (23 bp):
TGTGAAATTTAACACGTATTTTC
Found at i:36159507 original size:19 final size:21
Alignment explanation
Indices: 36159461--36159508 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 21
36159451 ATTATTTCTT
36159461 TTTTCTTAAAACAATAGTAAA
1 TTTTCTTAAAACAATAGTAAA
* * *
36159482 TTATCTTAATA-AATA-TTAA
1 TTTTCTTAAAACAATAGTAAA
36159501 TTTTCTTA
1 TTTTCTTA
36159509 CCTCTGTTGT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 10 0.43
20 4 0.17
21 9 0.39
ACGTcount: A:0.42, C:0.08, G:0.02, T:0.48
Consensus pattern (21 bp):
TTTTCTTAAAACAATAGTAAA
Found at i:36166278 original size:10 final size:10
Alignment explanation
Indices: 36166263--36166327 Score: 82
Period size: 10 Copynumber: 6.6 Consensus size: 10
36166253 TTCAATGCAA
36166263 AAAAAAGAAC
1 AAAAAAGAAC
36166273 AAAAAA-AA-
1 AAAAAAGAAC
36166281 AAGAAAAGAAC
1 AA-AAAAGAAC
36166292 AAAAAAGAAC
1 AAAAAAGAAC
*
36166302 AAAAAA-AAG
1 AAAAAAGAAC
36166311 AAAAAAGAAAC
1 AAAAAAG-AAC
36166322 AAAAAA
1 AAAAAA
36166328 ACCTCTACCG
Statistics
Matches: 48, Mismatches: 2, Indels: 9
0.81 0.03 0.15
Matches are distributed among these distances:
8 2 0.04
9 14 0.29
10 22 0.46
11 10 0.21
ACGTcount: A:0.85, C:0.06, G:0.09, T:0.00
Consensus pattern (10 bp):
AAAAAAGAAC
Found at i:36166304 original size:29 final size:30
Alignment explanation
Indices: 36166263--36166327 Score: 107
Period size: 29 Copynumber: 2.2 Consensus size: 30
36166253 TTCAATGCAA
36166263 AAAAAAGAACAAAAAAAA-AAGAAAAG-AAC
1 AAAAAAGAACAAAAAAAAGAA-AAAAGAAAC
36166292 AAAAAAGAACAAAAAAAAGAAAAAAGAAAC
1 AAAAAAGAACAAAAAAAAGAAAAAAGAAAC
36166322 AAAAAA
1 AAAAAA
36166328 ACCTCTACCG
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
29 23 0.68
30 11 0.32
ACGTcount: A:0.85, C:0.06, G:0.09, T:0.00
Consensus pattern (30 bp):
AAAAAAGAACAAAAAAAAGAAAAAAGAAAC
Found at i:36166327 original size:19 final size:19
Alignment explanation
Indices: 36166262--36166328 Score: 75
Period size: 19 Copynumber: 3.4 Consensus size: 19
36166252 ATTCAATGCA
36166262 AAAAAAAGAACAAAAAAA-
1 AAAAAAAGAACAAAAAAAC
36166280 AAAGAAAAGAACAAAAAAGAAC
1 AAA-AAAAGAAC-AAAAA-AAC
36166302 AAAAAAAAGAA-AAAAGAAAC
1 -AAAAAAAGAACAAAA-AAAC
36166322 AAAAAAA
1 AAAAAAA
36166329 CCTCTACCGG
Statistics
Matches: 43, Mismatches: 0, Indels: 11
0.80 0.00 0.20
Matches are distributed among these distances:
18 3 0.07
19 15 0.35
20 12 0.28
21 3 0.07
22 7 0.16
23 3 0.07
ACGTcount: A:0.85, C:0.06, G:0.09, T:0.00
Consensus pattern (19 bp):
AAAAAAAGAACAAAAAAAC
Found at i:36166850 original size:20 final size:22
Alignment explanation
Indices: 36166827--36166890 Score: 68
Period size: 20 Copynumber: 3.1 Consensus size: 22
36166817 TGAAAAAATG
36166827 TGAAAAAATG-AAAAT-AAAAA
1 TGAAAAAATGAAAAATGAAAAA
36166847 TG--AAAATGAAAAATGAAAAA
1 TGAAAAAATGAAAAATGAAAAA
36166867 TG-AAAAATGGAAAAAAT-AAAAA
1 TGAAAAAAT-G-AAAAATGAAAAA
36166889 TG
1 TG
36166891 GAGAGGCTAA
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
18 6 0.15
19 5 0.13
20 9 0.23
21 5 0.13
22 8 0.21
23 6 0.15
ACGTcount: A:0.70, C:0.00, G:0.14, T:0.16
Consensus pattern (22 bp):
TGAAAAAATGAAAAATGAAAAA
Found at i:36166852 original size:7 final size:7
Alignment explanation
Indices: 36166830--36166890 Score: 76
Period size: 6 Copynumber: 9.0 Consensus size: 7
36166820 AAAAATGTGA
36166830 AAAAATG
1 AAAAATG
36166837 -AAAAT-
1 AAAAATG
36166842 AAAAATG
1 AAAAATG
36166849 -AAAATG
1 AAAAATG
36166855 AAAAATG
1 AAAAATG
36166862 AAAAATG
1 AAAAATG
36166869 AAAAATGG
1 AAAAAT-G
36166877 AAAAAAT-
1 -AAAAATG
36166884 AAAAATG
1 AAAAATG
36166891 GAGAGGCTAA
Statistics
Matches: 48, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
6 22 0.46
7 19 0.40
8 1 0.02
9 6 0.12
ACGTcount: A:0.72, C:0.00, G:0.13, T:0.15
Consensus pattern (7 bp):
AAAAATG
Found at i:36166874 original size:14 final size:12
Alignment explanation
Indices: 36166830--36166890 Score: 68
Period size: 14 Copynumber: 4.6 Consensus size: 12
36166820 AAAAATGTGA
36166830 AAAAATGAAAAT
1 AAAAATGAAAAT
36166842 AAAAATGAAAAT
1 AAAAATGAAAAT
36166854 GAAAAATGAAAAAT
1 -AAAAATG-AAAAT
36166868 GAAAAATGGAAAAAAT
1 -AAAAAT-G--AAAAT
36166884 AAAAATG
1 AAAAATG
36166891 GAGAGGCTAA
Statistics
Matches: 45, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
12 12 0.27
13 7 0.16
14 13 0.29
15 7 0.16
16 6 0.13
ACGTcount: A:0.72, C:0.00, G:0.13, T:0.15
Consensus pattern (12 bp):
AAAAATGAAAAT
Found at i:36167462 original size:26 final size:26
Alignment explanation
Indices: 36167433--36167484 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
36167423 CTCTAGAAGT
36167433 TTCTAAATAATACAGTAACCTGAAAC
1 TTCTAAATAATACAGTAACCTGAAAC
*
36167459 TTCTAAATAATACAGTAACTTGAAAC
1 TTCTAAATAATACAGTAACCTGAAAC
36167485 AGGACAATTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.46, C:0.17, G:0.08, T:0.29
Consensus pattern (26 bp):
TTCTAAATAATACAGTAACCTGAAAC
Found at i:36168218 original size:45 final size:45
Alignment explanation
Indices: 36168169--36168396 Score: 137
Period size: 44 Copynumber: 5.2 Consensus size: 45
36168159 TGACCAGACT
* *
36168169 GAAGATAGTAGATATTGCCTTCCTGTACTGATAGAGAAGCAGATC
1 GAAGATAGCAGATCTTGCCTTCCTGTACTGATAGAGAAGCAGATC
* * * * ** * * * * *
36168214 GAAGATACCAGCT-TTGTCTCCCTGGGCAG-TAGTGGAGCAGGTT
1 GAAGATAGCAGATCTTGCCTTCCTGTACTGATAGAGAAGCAGATC
* * *
36168257 GAAAATAGCAAATCTTGCCTTCCTGTACTGACAGAGAAGCAGATC
1 GAAGATAGCAGATCTTGCCTTCCTGTACTGATAGAGAAGCAGATC
* * * * * * * *
36168302 GAAGATACCAG-CCTTGTCTCCCTAG-GCAG-TAGTAG-AGTAG-GC
1 GAAGATAGCAGATCTTGCCTTCCT-GTACTGATAG-AGAAGCAGATC
* * *
36168344 TGAAGATAGTAGATTTTGCCTTCCTGTACTGACAGAGAAGCAGATC
1 -GAAGATAGCAGATCTTGCCTTCCTGTACTGATAGAGAAGCAGATC
36168390 GAAGATA
1 GAAGATA
36168397 CCAGCCTTGT
Statistics
Matches: 125, Mismatches: 48, Indels: 20
0.65 0.25 0.10
Matches are distributed among these distances:
42 1 0.01
43 35 0.28
44 47 0.38
45 41 0.33
46 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (45 bp):
GAAGATAGCAGATCTTGCCTTCCTGTACTGATAGAGAAGCAGATC
Found at i:36168332 original size:88 final size:88
Alignment explanation
Indices: 36168168--36168482 Score: 434
Period size: 88 Copynumber: 3.6 Consensus size: 88
36168158 CTGACCAGAC
* * * * *
36168168 TGAAGATAGTAGATATTGCCTTCCTGTACTGATAGAGAAGCAGATCGAAGATACCAGCTTTGTCT
1 TGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGAGAAGCAGATCGAAGATACCAGCCTTGTCT
*
36168233 CCCTGGGCAGTAGTGGAGCAGGT
66 CCCTGGGCAGTAGTGGAGTAGGT
*
36168256 TGAAAATAGCAAATCTTGCCTTCCTGTACTGACAGAGAAGCAGATCGAAGATACCAGCCTTGTCT
1 TGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGAGAAGCAGATCGAAGATACCAGCCTTGTCT
* * *
36168321 CCCTAGGCAGTAGTAGAGTAGGC
66 CCCTGGGCAGTAGTGGAGTAGGT
* * *
36168344 TGAAGATAGTAGATTTTGCCTTCCTGTACTGACAGAGAAGCAGATCGAAGATACCAGCCTTGTCT
1 TGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGAGAAGCAGATCGAAGATACCAGCCTTGTCT
** *
36168409 TACTGGGCAGCAGTGGAGTAGGT
66 CCCTGGGCAGTAGTGGAGTAGGT
* * * *
36168432 CGAAAAT-GACAGATCTTGCCTTCCTGTACTGGCAGCGAAGCAGATCAAAGA
1 TGAAAATAG-CAGATCTTGCCTTCCTGTACTGACAGAGAAGCAGATCGAAGA
36168483 CATCAGTCTT
Statistics
Matches: 199, Mismatches: 27, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
87 1 0.01
88 198 0.99
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.24
Consensus pattern (88 bp):
TGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGAGAAGCAGATCGAAGATACCAGCCTTGTCT
CCCTGGGCAGTAGTGGAGTAGGT
Found at i:36168894 original size:40 final size:44
Alignment explanation
Indices: 36168798--36168909 Score: 133
Period size: 40 Copynumber: 2.6 Consensus size: 44
36168788 TGAATAATCC
* *
36168798 TATCTCCCTGAAGATGCAGTGGAGCGGATTAAAATCATAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCATAGATCT
** * * *
36168842 TATCTCTTTGAAGTTGCAG-AGAGCAGA-TCACAT-ATAG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCATAGATCT
36168882 TATCTCCCTGAAGTTGCAGTGGAGCAGA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA
36168910 CAGAAGAAAC
Statistics
Matches: 57, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
40 20 0.35
41 11 0.19
42 4 0.07
43 6 0.11
44 16 0.28
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCATAGATCT
Found at i:36169754 original size:12 final size:11
Alignment explanation
Indices: 36169728--36169762 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
36169718 TCTCTTTGTG
36169728 TTTTATTTTCC
1 TTTTATTTTCC
*
36169739 TTTTATTTTTC
1 TTTTATTTTCC
36169750 TTTT-TTTTCC
1 TTTTATTTTCC
36169760 TTT
1 TTT
36169763 GATACTCTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 8 0.36
11 14 0.64
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTTATTTTCC
Found at i:36174005 original size:41 final size:41
Alignment explanation
Indices: 36173899--36174098 Score: 310
Period size: 41 Copynumber: 4.9 Consensus size: 41
36173889 TTTTGACCTT
* *
36173899 TCAGGGCTTTAGAGGTGTTTTTGGAGAAGCGCCGCTAATGC
1 TCAGGGCTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGC
*
36173940 TCAAGGGATTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGC
1 TC-AGGGCTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGC
*
36173982 TCAGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
1 TCAGGGCTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGC
* *
36174023 TTAGGGCTTTAGCGGCGTTTTTTGAGAAGCGCCGCTAATGC
1 TCAGGGCTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGC
* * *
36174064 TCAGGGCTTTAGCGGCGTTCTTGTAAAAGCGCCGC
1 TCAGGGCTTTAGCGGCGTTTTTGGAGAAGCGCCGC
36174099 AAAAACATTT
Statistics
Matches: 145, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
41 107 0.74
42 38 0.26
ACGTcount: A:0.19, C:0.20, G:0.33, T:0.28
Consensus pattern (41 bp):
TCAGGGCTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGC
Found at i:36174476 original size:43 final size:43
Alignment explanation
Indices: 36174418--36174518 Score: 107
Period size: 43 Copynumber: 2.3 Consensus size: 43
36174408 TAAGGTTTTT
* *
36174418 GGTTTA-GGGTATATGG-CATATAGTTTAAGGTTTATGGATTATG
1 GGTTTAGGGGT-TATGGTCATAAAGTTTAAGGTTTAAGGATTA-G
** * *
36174461 GGTTTAGGGGTTATGGTTTTAAAGTTTATGGTTTAAGGTTTAG
1 GGTTTAGGGGTTATGGTCATAAAGTTTAAGGTTTAAGGATTAG
*
36174504 GATTTAGGGGTTATG
1 GGTTTAGGGGTTATG
36174519 ATTTATGGTT
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
43 26 0.53
44 23 0.47
ACGTcount: A:0.23, C:0.01, G:0.33, T:0.44
Consensus pattern (43 bp):
GGTTTAGGGGTTATGGTCATAAAGTTTAAGGTTTAAGGATTAG
Found at i:36174501 original size:14 final size:14
Alignment explanation
Indices: 36174405--36174535 Score: 68
Period size: 14 Copynumber: 9.2 Consensus size: 14
36174395 TATCTCTATA
*
36174405 GTTTAAGGTTTTTG
1 GTTTAAGGTTTATG
* *
36174419 GTTTAGGGTATATG
1 GTTTAAGGTTTATG
** *
36174433 GCATATA-GTTTAAG
1 GTTTA-AGGTTTATG
* *
36174447 GTTTATGGATTATGG
1 GTTTAAGGTTTAT-G
* *
36174462 GTTTAGGGGTTATG
1 GTTTAAGGTTTATG
*
36174476 GTTTTAAAGTTTATG
1 G-TTTAAGGTTTATG
36174491 GTTTAAGGTTTA-G
1 GTTTAAGGTTTATG
* *
36174504 GATTTAGGGGTTATG
1 G-TTTAAGGTTTATG
* * *
36174519 ATTTATGGTTTAAG
1 GTTTAAGGTTTATG
36174533 GTT
1 GTT
36174536 ATATATTAAG
Statistics
Matches: 85, Mismatches: 26, Indels: 12
0.69 0.21 0.10
Matches are distributed among these distances:
13 2 0.02
14 59 0.69
15 24 0.28
ACGTcount: A:0.22, C:0.01, G:0.31, T:0.47
Consensus pattern (14 bp):
GTTTAAGGTTTATG
Found at i:36174754 original size:17 final size:17
Alignment explanation
Indices: 36174722--36174763 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
36174712 AAATTATTTA
*
36174722 TAAATAA-TTGATATAT
1 TAAATAATTTAATATAT
36174738 TAAATAATTTAATATAT
1 TAAATAATTTAATATAT
36174755 TAAAATAAT
1 T-AAATAAT
36174764 GATTATAGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 7 0.30
17 9 0.39
18 7 0.30
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (17 bp):
TAAATAATTTAATATAT
Found at i:36174899 original size:8 final size:8
Alignment explanation
Indices: 36174871--36174907 Score: 51
Period size: 7 Copynumber: 4.9 Consensus size: 8
36174861 AGATTTAAAT
36174871 TTTAGGGG
1 TTTAGGGG
36174879 -TTAGGGG
1 TTTAGGGG
36174886 -TTAGGGG
1 TTTAGGGG
*
36174893 TTTAGGGT
1 TTTAGGGG
36174901 TTTAGGG
1 TTTAGGG
36174908 TTATGTTGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
7 14 0.52
8 13 0.48
ACGTcount: A:0.14, C:0.00, G:0.49, T:0.38
Consensus pattern (8 bp):
TTTAGGGG
Found at i:36178725 original size:11 final size:11
Alignment explanation
Indices: 36178709--36178733 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
36178699 CCTTTTATTA
36178709 TTTATTATTTT
1 TTTATTATTTT
36178720 TTTATTATTTT
1 TTTATTATTTT
36178731 TTT
1 TTT
36178734 CTAAAATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTATTATTTT
Found at i:36196259 original size:16 final size:16
Alignment explanation
Indices: 36196228--36196267 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
36196218 AGGGTGTGCC
36196228 AATGATAATAGAAAAGA
1 AATGA-AATAGAAAAGA
*
36196245 AATGAAATTGAAAAGA
1 AATGAAATAGAAAAGA
*
36196261 AAGGAAA
1 AATGAAA
36196268 AAAACTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 16 0.76
17 5 0.24
ACGTcount: A:0.65, C:0.00, G:0.20, T:0.15
Consensus pattern (16 bp):
AATGAAATAGAAAAGA
Found at i:36196413 original size:5 final size:5
Alignment explanation
Indices: 36196403--36196439 Score: 65
Period size: 5 Copynumber: 7.4 Consensus size: 5
36196393 TTTTCAAAAG
*
36196403 AATAA AATAA AATGA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AATAA AATAA AA
36196440 GAAACAAAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:36197542 original size:254 final size:254
Alignment explanation
Indices: 36197211--36197719 Score: 948
Period size: 254 Copynumber: 2.0 Consensus size: 254
36197201 TGATCATCCG
36197211 ATTATTAGAAAGTTTCTTATTAGGTTACTTGACTTTAAAAAGTTAGAAAATGATCACTTGACTAG
1 ATTATTAGAAAGTTTCTTATTAGGTTACTTGACTTTAAAAAGTTAGAAAATGATCACTTGACTAG
*
36197276 TCAATTTTTTTAGTCCAAAATTGTTAAAATGCTAATAGTTTGGTGACTCATCAGTTAACTTAACA
66 TCAAATTTTTTAGTCCAAAATTGTTAAAATGCTAATAGTTTGGTGACTCATCAGTTAACTTAACA
*
36197341 GTATGATTTTTTAACCATTATTTTTTTTCCACATGCTTTTAATGTCATTTTATAATTAATATAAA
131 GTATGATTTTTTAACCATTA-ATTTTTTCCACATGCTTTTAATGTCATTTTATAATTAATATAAA
36197406 AAATCTTAAACCCAAAATT-AAACTACACCGTTTATGGTCTTTTTCTCGTTAGGAACCCT
195 AAATCTTAAACCCAAAATTAAAACTACACCGTTTATGGTCTTTTTCTCGTTAGGAACCCT
*
36197465 ATTATTAGAAAGTTTCTTATTAGGTTTCTTGACTTTAAAAAGTTAGAAAATGATCACTTGACTAG
1 ATTATTAGAAAGTTTCTTATTAGGTTACTTGACTTTAAAAAGTTAGAAAATGATCACTTGACTAG
* *
36197530 TCAAATTTTTTAGTCCAAAATTGTTAAAATGCTAATAGTTTGGTGACTCATTAGTTAACTTAACG
66 TCAAATTTTTTAGTCCAAAATTGTTAAAATGCTAATAGTTTGGTGACTCATCAGTTAACTTAACA
36197595 GTATGATTTTTTAACCATTAATTTTTTCCACATGCTTTTAATGTCATTTTATAATTAATATAAAA
131 GTATGATTTTTTAACCATTAATTTTTTCCACATGCTTTTAATGTCATTTTATAATTAATATAAAA
*
36197660 AATCTTAAACCCAAAATTAAAACTACACCGTTTATGGTCTTTTTCTTGTTAGGAACCCT
196 AATCTTAAACCCAAAATTAAAACTACACCGTTTATGGTCTTTTTCTCGTTAGGAACCCT
36197719 A
1 A
36197720 AAATGCTTTT
Statistics
Matches: 248, Mismatches: 6, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
253 62 0.25
254 186 0.75
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.41
Consensus pattern (254 bp):
ATTATTAGAAAGTTTCTTATTAGGTTACTTGACTTTAAAAAGTTAGAAAATGATCACTTGACTAG
TCAAATTTTTTAGTCCAAAATTGTTAAAATGCTAATAGTTTGGTGACTCATCAGTTAACTTAACA
GTATGATTTTTTAACCATTAATTTTTTCCACATGCTTTTAATGTCATTTTATAATTAATATAAAA
AATCTTAAACCCAAAATTAAAACTACACCGTTTATGGTCTTTTTCTCGTTAGGAACCCT
Found at i:36200527 original size:17 final size:17
Alignment explanation
Indices: 36200507--36200539 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
36200497 CATGTGGGCC
36200507 ACACGGGTGTGTGGACA
1 ACACGGGTGTGTGGACA
36200524 ACACGGGTGTGTGGAC
1 ACACGGGTGTGTGGAC
36200540 CCATTTTCTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.18, G:0.42, T:0.18
Consensus pattern (17 bp):
ACACGGGTGTGTGGACA
Found at i:36213650 original size:23 final size:23
Alignment explanation
Indices: 36213621--36213698 Score: 129
Period size: 23 Copynumber: 3.4 Consensus size: 23
36213611 CTATCATCCA
*
36213621 CCAAACACAACCAAACATAGCCT
1 CCAAACACAACCAAATATAGCCT
36213644 CCAAACACAACCAAATATAGCCT
1 CCAAACACAACCAAATATAGCCT
* *
36213667 CCCAACACAACCAAATATACCCT
1 CCAAACACAACCAAATATAGCCT
36213690 CCAAACACA
1 CCAAACACA
36213699 TCCGTTTAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.47, C:0.40, G:0.03, T:0.10
Consensus pattern (23 bp):
CCAAACACAACCAAATATAGCCT
Found at i:36216018 original size:32 final size:32
Alignment explanation
Indices: 36215965--36216029 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
36215955 GAATTATAAA
*
36215965 TATTCAAGAAATATTACTTGAA-AAGTTATGTT
1 TATTCAAGAAATATTAATTGAATAA-TTATGTT
* *
36215997 TATTTAAGAGATATTAATTGAATAATTATGTT
1 TATTCAAGAAATATTAATTGAATAATTATGTT
36216029 T
1 T
36216030 CTTTTAAAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 27 0.93
33 2 0.07
ACGTcount: A:0.40, C:0.03, G:0.12, T:0.45
Consensus pattern (32 bp):
TATTCAAGAAATATTAATTGAATAATTATGTT
Found at i:36217696 original size:40 final size:40
Alignment explanation
Indices: 36217641--36217727 Score: 131
Period size: 40 Copynumber: 2.2 Consensus size: 40
36217631 GAATGCTTAA
*
36217641 ATGCCTTAGTATGTGTTAGCCTG-TTATGTATATTGTGTAT
1 ATGCCCTAGTATGTGTTAGCC-GATTATGTATATTGTGTAT
* *
36217681 ATGCCCTAGTATGTGTTAGTCGATTGTGTATATTGTGTAT
1 ATGCCCTAGTATGTGTTAGCCGATTATGTATATTGTGTAT
36217721 ATGCCCT
1 ATGCCCT
36217728 GATATATGTA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
39 1 0.02
40 42 0.98
ACGTcount: A:0.20, C:0.13, G:0.23, T:0.45
Consensus pattern (40 bp):
ATGCCCTAGTATGTGTTAGCCGATTATGTATATTGTGTAT
Found at i:36217742 original size:40 final size:40
Alignment explanation
Indices: 36217667--36217751 Score: 127
Period size: 40 Copynumber: 2.1 Consensus size: 40
36217657 TAGCCTGTTA
* *
36217667 TGTATATTGTGTATATGCCCTAGTATGTGTTAGTCGATTG
1 TGTATATTGTGTATATGCCCTAGTATATGTAAGTCGATTG
*
36217707 TGTATATTGTGTATATGCCCT-GATATATGTAAGTCGGTTG
1 TGTATATTGTGTATATGCCCTAG-TATATGTAAGTCGATTG
36217747 TGTAT
1 TGTAT
36217752 GCCCTAATCT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
39 1 0.02
40 40 0.98
ACGTcount: A:0.21, C:0.09, G:0.25, T:0.45
Consensus pattern (40 bp):
TGTATATTGTGTATATGCCCTAGTATATGTAAGTCGATTG
Found at i:36225008 original size:30 final size:30
Alignment explanation
Indices: 36224974--36225046 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
36224964 TTGACCCATT
* *
36224974 CCTTTTCATAATTCGATAACCAAAGTTATC
1 CCTTTTCATAATTCGACAACCAAAGCTATC
* * **
36225004 CCTTTTCATAGTTCGACAGCTGAAGCTATC
1 CCTTTTCATAATTCGACAACCAAAGCTATC
*
36225034 CTTTTTCATAATT
1 CCTTTTCATAATT
36225047 TGATGGTCGT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.40
Consensus pattern (30 bp):
CCTTTTCATAATTCGACAACCAAAGCTATC
Found at i:36225131 original size:91 final size:90
Alignment explanation
Indices: 36225025--36225307 Score: 365
Period size: 91 Copynumber: 3.2 Consensus size: 90
36225015 TTCGACAGCT
* * * * * *
36225025 GAAGCTATCCTTTTTCATAATTTGATGGTCGTCACCATCCCTCTCCATTGTTCGATGGTCATCCC
1 GAAGCTATCCCTTTTCATAATTCGATGGTCGTCACTATCCCTTTCCATTGTTCGATGGTCGTCAC
*
36225090 CATCCATTTTTAATAATTTGATAGTC
66 CATCCA-TTTTAATAATTTGATAGCC
* * * * * *
36225116 GAAGCTATCCCTTTTCATAGTTCAATGATAGTCACTATCCCTTTTCATTATTCGATGGTCGTCAC
1 GAAGCTATCCCTTTTCATAATTCGATGGTCGTCACTATCCCTTTCCATTGTTCGATGGTCGTCAC
36225181 CATCCATTTTAATAATTTGATAGCC
66 CATCCATTTTAATAATTTGATAGCC
* * *
36225206 GAAGTTATCCCTTTTCAT-AGTCGATGGTCGTCACTATCCCTTTCCATTGTT-GATTGTCGTCAC
1 GAAGCTATCCCTTTTCATAATTCGATGGTCGTCACTATCCCTTTCCATTGTTCGATGGTCGTCAC
* * *
36225269 CATCCCTTTTCATAA-TCGATAGCC
66 CATCCATTTTAATAATTTGATAGCC
36225293 GAAGCTATCCCTTTT
1 GAAGCTATCCCTTTT
36225308 TGTATTCGAT
Statistics
Matches: 166, Mismatches: 26, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
87 22 0.13
88 24 0.14
89 26 0.16
90 35 0.21
91 59 0.36
ACGTcount: A:0.22, C:0.25, G:0.13, T:0.39
Consensus pattern (90 bp):
GAAGCTATCCCTTTTCATAATTCGATGGTCGTCACTATCCCTTTCCATTGTTCGATGGTCGTCAC
CATCCATTTTAATAATTTGATAGCC
Done.