Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 151 of 770
Found at i:44450618 original size:40 final size:38
Alignment explanation
Indices: 44450574--44450718 Score: 136
Period size: 40 Copynumber: 3.8 Consensus size: 38
44450564 GGAAATTATA
*
44450574 TCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACT
1 TCCGGGCTAAGACCCGAAGGCAATTGTGCTAGT--CTACT
* * * *
44450614 TCCGGGCTAAGTCCCG-AGGACATTTATGCTAGTATA--
1 TCCGGGCTAAGACCCGAAGG-CAATTGTGCTAGTCTACT
* *
44450650 TCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTCT
1 TCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTC-TACT
*
44450689 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 -TCCGGGCTAAGACCCGAAGGCAATTGTGC
44450719 AAATCGTGAT
Statistics
Matches: 85, Mismatches: 12, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
35 2 0.02
36 22 0.26
37 4 0.05
38 2 0.02
39 3 0.04
40 50 0.59
41 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (38 bp):
TCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTCTACT
Found at i:44450694 original size:76 final size:77
Alignment explanation
Indices: 44450532--44450714 Score: 196
Period size: 76 Copynumber: 2.4 Consensus size: 77
44450522 ACTTGAATGA
* * * * *
44450532 TATCCGGGCTAAGTCCCGAAGACGTTAATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGTCCCGAGGACATTTATGCT---AAGTATATCCGGGCTAAGACCCGAAGGCAA
*
44450597 TTGTGCTAGTGGCTAC
63 TTGTGCGAGT-GCTAC
44450613 T-TCCGGGCTAAGTCCCGAGGACATTTATGCT-AGTATATCCGGGCTAAGACCCGAAGGC-ATTC
1 TATCCGGGCTAAGTCCCGAGGACATTTATGCTAAGTATATCCGGGCTAAGACCCGAAGGCAATT-
*
44450675 GTGCGAGT-CATTC
65 GTGCGAGTGC-TAC
*
44450688 TATCCGGGCTAAGACCCGAAGG-CATTT
1 TATCCGGGCTAAGTCCCG-AGGACATTT
44450715 GTGCAAATCG
Statistics
Matches: 90, Mismatches: 8, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
74 1 0.01
75 6 0.07
76 52 0.58
77 3 0.03
80 27 0.30
81 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (77 bp):
TATCCGGGCTAAGTCCCGAGGACATTTATGCTAAGTATATCCGGGCTAAGACCCGAAGGCAATTG
TGCGAGTGCTAC
Found at i:44450732 original size:40 final size:39
Alignment explanation
Indices: 44450529--44450733 Score: 127
Period size: 40 Copynumber: 5.2 Consensus size: 39
44450519 AGAACTTGAA
* * * *
44450529 TGATATCCGGGCTAAGTCCCGAAGACGTTAATGCTGGAAAT-
1 TGATATCCGGGCTAAGACCCGAAGGCATT--TG-TGCAAATG
* * * *
44450570 T-ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
* * * *
44450608 -GCTACTTCCGGGCTAAGTCCCG-AGGACATTTATGC-TA-G
1 TGATA--TCCGGGCTAAGACCCGAAGG-CATTTGTGCAAATG
* * * *
44450646 T-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
**
44450685 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
44450725 TGATATCCG
1 TGATATCCG
44450734 AGTTAAGTCC
Statistics
Matches: 124, Mismatches: 29, Indels: 23
0.70 0.16 0.13
Matches are distributed among these distances:
36 22 0.18
37 7 0.06
38 7 0.06
39 4 0.03
40 83 0.67
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:44455247 original size:18 final size:18
Alignment explanation
Indices: 44455226--44455324 Score: 90
Period size: 18 Copynumber: 5.5 Consensus size: 18
44455216 AACATTCAAA
*
44455226 TATTCAGTAGCAATTAGT
1 TATTCAGTAGCAATCAGT
* *
44455244 TATTCAGTAACAATCATT
1 TATTCAGTAGCAATCAGT
**
44455262 TGCTCAGTAGCAATCAGT
1 TATTCAGTAGCAATCAGT
* * * *
44455280 TATTCGGTAACGATCAAT
1 TATTCAGTAGCAATCAGT
* *
44455298 TATTCAGTAACAGTCAGT
1 TATTCAGTAGCAATCAGT
*
44455316 CATTCAGTA
1 TATTCAGTA
44455325 CTTTTATTTA
Statistics
Matches: 63, Mismatches: 18, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 63 1.00
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.34
Consensus pattern (18 bp):
TATTCAGTAGCAATCAGT
Found at i:44455253 original size:36 final size:35
Alignment explanation
Indices: 44455213--44455324 Score: 116
Period size: 36 Copynumber: 3.1 Consensus size: 35
44455203 AATTTCATTT
* *
44455213 AGTAACATTCAAATATTCAGTAGCAATTAGTTATTC
1 AGTAACA-TCAATTATTCAGTAGCAATCAGTTATTC
* **
44455249 AGTAACAATCATTTGCTCAGTAGCAATCAGTTATTC
1 AGTAAC-ATCAATTATTCAGTAGCAATCAGTTATTC
* * * *
44455285 GGTAACGATCAATTATTCAGTAACAGTCAGTCATTC
1 AGTAAC-ATCAATTATTCAGTAGCAATCAGTTATTC
44455321 AGTA
1 AGTA
44455325 CTTTTATTTA
Statistics
Matches: 61, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
36 60 0.98
37 1 0.02
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (35 bp):
AGTAACATCAATTATTCAGTAGCAATCAGTTATTC
Found at i:44456732 original size:21 final size:21
Alignment explanation
Indices: 44456687--44456732 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
44456677 TCAAATTTCC
*
44456687 CTTT-CTTCTTTCTTTTATTT
1 CTTTCCTTCTTTCTTTTATGT
*
44456707 CTTTCCTTCTTTTCTTTTCTGT
1 CTTTCCTTC-TTTCTTTTATGT
44456729 -TTTC
1 CTTTC
44456733 GTTTCATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 4 0.18
21 8 0.36
22 10 0.45
ACGTcount: A:0.02, C:0.24, G:0.02, T:0.72
Consensus pattern (21 bp):
CTTTCCTTCTTTCTTTTATGT
Found at i:44457787 original size:6 final size:6
Alignment explanation
Indices: 44457778--44457881 Score: 70
Period size: 6 Copynumber: 16.8 Consensus size: 6
44457768 AATTAAAATG
* * *
44457778 AGAATC AGAATC AGAATC AG-GTGAC AGAATT AGAATC AGAATT AGAATC
1 AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC AGAATC
* * * *
44457827 AGAATT AG-GTGAC AGAATC AAAATC AGTATC AGGTAA-C AGAATC AGAATC
1 AGAATC AGAAT--C AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC
44457877 AGAAT
1 AGAAT
44457882 GTGAATGCAA
Statistics
Matches: 75, Mismatches: 14, Indels: 18
0.70 0.13 0.17
Matches are distributed among these distances:
5 4 0.05
6 60 0.80
7 8 0.11
8 3 0.04
ACGTcount: A:0.47, C:0.12, G:0.20, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:44457819 original size:37 final size:37
Alignment explanation
Indices: 44457766--44457872 Score: 135
Period size: 37 Copynumber: 2.9 Consensus size: 37
44457756 TATCAGAACT
*
44457766 AGAATTAAAATGAGAATCAGAATCAGAATCAGGTGAC
1 AGAATTAAAATCAGAATCAGAATCAGAATCAGGTGAC
* * *
44457803 AGAATTAGAATCAGAATTAGAATCAGAATTAGGTGAC
1 AGAATTAAAATCAGAATCAGAATCAGAATCAGGTGAC
* *
44457840 AGAATCAAAATCAGTATCAGGTAA-CAGAATCAG
1 AGAATTAAAATCAGAATCA-G-AATCAGAATCAG
44457873 AATCAGAATG
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
37 48 0.81
38 9 0.15
39 2 0.03
ACGTcount: A:0.48, C:0.11, G:0.21, T:0.21
Consensus pattern (37 bp):
AGAATTAAAATCAGAATCAGAATCAGAATCAGGTGAC
Found at i:44457842 original size:25 final size:25
Alignment explanation
Indices: 44457814--44457881 Score: 91
Period size: 25 Copynumber: 2.7 Consensus size: 25
44457804 GAATTAGAAT
* * *
44457814 CAGAATTAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGAATCAGGTAA
* *
44457839 CAGAATCAAAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
44457864 CAGAATCAGAATCAGAAT
1 CAGAATCAGAATCAGAAT
44457882 GTGAATGCAA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.47, C:0.13, G:0.19, T:0.21
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAGGTAA
Found at i:44458038 original size:27 final size:26
Alignment explanation
Indices: 44458001--44458079 Score: 86
Period size: 27 Copynumber: 3.0 Consensus size: 26
44457991 CATGGCTGCT
* *
44458001 AGAACAGATATTGTGATAGAGTCACC
1 AGAACAGATATTGTGACAGAGCCACC
* *
44458027 AGAAACAAATATTGTGGCAGAGCCACC
1 AG-AACAGATATTGTGACAGAGCCACC
* *
44458054 AGAACAGATATTTGTGGCAAAGCCAC
1 AGAACAGATA-TTGTGACAGAGCCAC
44458080 TTAACAGAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
26 9 0.20
27 36 0.80
ACGTcount: A:0.39, C:0.19, G:0.23, T:0.19
Consensus pattern (26 bp):
AGAACAGATATTGTGACAGAGCCACC
Found at i:44458266 original size:22 final size:22
Alignment explanation
Indices: 44458238--44458302 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
44458228 GCAAGTACGT
*
44458238 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
44458260 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
44458282 TTGGCGCAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
44458303 AATAATTGGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:44458829 original size:27 final size:27
Alignment explanation
Indices: 44458691--44458830 Score: 167
Period size: 27 Copynumber: 5.2 Consensus size: 27
44458681 GGGCAAAATG
* * * * *
44458691 GTAATTTTACCTTATAAGGGTATCTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
*
44458718 GTAATTCTACCCTACACGGGTATTTC-
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
44458744 GATATTTCTACCCTACAAGGGCATTTCA
1 G-TAATTCTACCCTACAAGGGTATTTCA
*
44458772 GTAATTCTACCCTACAGGGGTATTT-A
1 GTAATTCTACCCTACAAGGGTATTTCA
44458798 GTAATTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
44458825 ATAATT
1 GTAATT
44458831 TTGTAAATCG
Statistics
Matches: 97, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
26 26 0.27
27 70 0.72
28 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCA
Found at i:44460087 original size:19 final size:21
Alignment explanation
Indices: 44460064--44460111 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
44460054 TTATTTTTTT
*
44460064 CCTAATTACTCTTAATT-AAG
1 CCTAATTACACTTAATTAAAG
44460084 -CTAAATT-CACTTAATTAAAG
1 CCT-AATTACACTTAATTAAAG
44460104 CCTAATTA
1 CCTAATTA
44460112 ACCAGTCGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
19 10 0.43
20 11 0.48
21 2 0.09
ACGTcount: A:0.40, C:0.19, G:0.04, T:0.38
Consensus pattern (21 bp):
CCTAATTACACTTAATTAAAG
Found at i:44467993 original size:40 final size:40
Alignment explanation
Indices: 44467914--44468095 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 40
44467904 GAGTCACGTA
* * **
44467914 CCTTCGGGAT-TTAA-CCGGATACAACCACAAGCACAATTG
1 CCTTCGGG-TCTTAACCCGGATATAACAACTCGCACAATTG
* *** * *
44467953 CCTTCGGGTCTTAACCCGGATTTGGTAACTTGCACCATTG
1 CCTTCGGGTCTTAACCCGGATATAACAACTCGCACAATTG
*
44467993 CCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA-TG
1 CCTTCGGGTCTTAACCCGGATATAACAACTCGCAC-AATTG
* * * * * *
44468033 CCTTCGGGTCTTAGCCCAGACATAATC-ACTAGCATAAATG
1 CCTTCGGGTCTTAACCCGGATATAA-CAACTCGCACAATTG
* *
44468073 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGTCTTAACCCGGATAT
44468096 CATTCAAATG
Statistics
Matches: 115, Mismatches: 23, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
38 1 0.01
39 14 0.12
40 98 0.85
41 2 0.02
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (40 bp):
CCTTCGGGTCTTAACCCGGATATAACAACTCGCACAATTG
Found at i:44468786 original size:2 final size:2
Alignment explanation
Indices: 44468779--44468812 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
44468769 ATGTGCAAAC
44468779 AT 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
44468813 GCAAGAGCCG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:44472046 original size:27 final size:27
Alignment explanation
Indices: 44471990--44472068 Score: 110
Period size: 27 Copynumber: 3.0 Consensus size: 27
44471980 ATTACCAAAG
* *
44471990 TACCCTCGATTTATAGAA-TA--ATTT
1 TACCCTCAATTTACAGAATTACCATTT
44472014 TACCCTCAATTTACAGAATTACCATTT
1 TACCCTCAATTTACAGAATTACCATTT
*
44472041 TACCCTCAATTTACAAAATTACCATTT
1 TACCCTCAATTTACAGAATTACCATTT
44472068 T
1 T
44472069 CAGAATTACC
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
24 16 0.33
25 2 0.04
27 31 0.63
ACGTcount: A:0.34, C:0.23, G:0.04, T:0.39
Consensus pattern (27 bp):
TACCCTCAATTTACAGAATTACCATTT
Found at i:44472073 original size:42 final size:42
Alignment explanation
Indices: 44472022--44472110 Score: 133
Period size: 42 Copynumber: 2.1 Consensus size: 42
44472012 TTTACCCTCA
*
44472022 ATTTACAGAATTACCATTTTACCCTCAATTTACAAAATTACC
1 ATTTTCAGAATTACCATTTTACCCTCAATTTACAAAATTACC
* * *
44472064 ATTTTCAGAATTACCATTTTACCCTCGATTTATAGAATTACC
1 ATTTTCAGAATTACCATTTTACCCTCAATTTACAAAATTACC
*
44472106 GTTTT
1 ATTTT
44472111 ACTCTCGATT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.33, C:0.21, G:0.06, T:0.40
Consensus pattern (42 bp):
ATTTTCAGAATTACCATTTTACCCTCAATTTACAAAATTACC
Found at i:44472094 original size:27 final size:27
Alignment explanation
Indices: 44472070--44472212 Score: 196
Period size: 27 Copynumber: 5.3 Consensus size: 27
44472060 TACCATTTTC
44472070 AGAATTACCATTTTACCCTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAT
* *
44472097 AGAATTACCGTTTTACTCTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAT
44472124 AGAATTACCATTTTACCCTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAT
* * *
44472151 AGAATTACCGTTTTACCTTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAT
* * * *
44472178 AAAATTACCTTTTTACCCTCTATTTAC
1 AGAATTACCATTTTACCCTCGATTTAT
*
44472205 AAAATTAC
1 AGAATTAC
44472213 TGAAATACCC
Statistics
Matches: 105, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 105 1.00
ACGTcount: A:0.30, C:0.22, G:0.07, T:0.41
Consensus pattern (27 bp):
AGAATTACCATTTTACCCTCGATTTAT
Found at i:44472133 original size:54 final size:54
Alignment explanation
Indices: 44472064--44472212 Score: 219
Period size: 54 Copynumber: 2.8 Consensus size: 54
44472054 CAAAATTACC
*
44472064 ATTTTCAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTTA-CTCTCG
1 ATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTTACCT-TCG
*
44472118 ATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTTACCTTCG
1 ATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTTACCTTCG
* * * * *
44472172 ATTTACAAAATTACCTTTTTACCCTCTATTTACAAAATTAC
1 ATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTAC
44472213 TGAAATACCC
Statistics
Matches: 86, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
54 84 0.98
55 2 0.02
ACGTcount: A:0.30, C:0.21, G:0.07, T:0.42
Consensus pattern (54 bp):
ATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTTACCTTCG
Found at i:44472230 original size:27 final size:27
Alignment explanation
Indices: 44472200--44472360 Score: 171
Period size: 27 Copynumber: 6.0 Consensus size: 27
44472190 TTACCCTCTA
* ** *
44472200 TTTACAAAATTACTGAAATACCCTTGG
1 TTTATAAAATTACCAAAATACCCCTGG
* * *
44472227 TTTAAAAAAATACCAAAATA-CCCTCG
1 TTTATAAAATTACCAAAATACCCCTGG
* * *
44472253 ATCAGTAAAATTACCAAAATACCCTTGG
1 TTTA-TAAAATTACCAAAATACCCCTGG
* *
44472281 TTTGTAAAATTACTAAAATACCCCTGG
1 TTTATAAAATTACCAAAATACCCCTGG
* *
44472308 CTTGTAAAATTACCAAAATACCCCTGG
1 TTTATAAAATTACCAAAATACCCCTGG
*
44472335 CTTATAAAATTACCAAAATACCCCTG
1 TTTATAAAATTACCAAAATACCCCTG
44472361 ATTTGCGAAG
Statistics
Matches: 112, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
26 6 0.05
27 101 0.90
28 5 0.04
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.28
Consensus pattern (27 bp):
TTTATAAAATTACCAAAATACCCCTGG
Found at i:44472358 original size:54 final size:55
Alignment explanation
Indices: 44472205--44472360 Score: 199
Period size: 54 Copynumber: 2.9 Consensus size: 55
44472195 CTCTATTTAC
** * * *
44472205 AAAATTACTGAAATACCCTTGGTTTAAAAAAATACCAAAATA-CCCTCGATCAGT
1 AAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGATCAGT
* * * *
44472259 AAAATTACCAAAATACCCTTGGTTTGTAAAATTACTAAAATACCCCTGGCT-TGT
1 AAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGATCAGT
* *
44472313 AAAATTACCAAAATACCCCTGGCTTATAAAATTACCAAAATACCCCTG
1 AAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTG
44472361 ATTTGCGAAG
Statistics
Matches: 88, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
54 82 0.93
55 6 0.07
ACGTcount: A:0.42, C:0.22, G:0.09, T:0.27
Consensus pattern (55 bp):
AAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGATCAGT
Found at i:44472380 original size:27 final size:27
Alignment explanation
Indices: 44472350--44472412 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 27
44472340 AAAATTACCA
**
44472350 AAATACCCCT-GATTTGCGAAGTTATCG
1 AAATACCCCTCGATTTG-GAAAATATCG
* *
44472377 AAATA-CTCTCGATTTGTAAAATATCG
1 AAATACCCCTCGATTTGGAAAATATCG
44472403 AAATACCCCT
1 AAATACCCCT
44472413 ATAGGGTAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
26 15 0.52
27 14 0.48
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.30
Consensus pattern (27 bp):
AAATACCCCTCGATTTGGAAAATATCG
Found at i:44472382 original size:81 final size:81
Alignment explanation
Indices: 44472191--44472366 Score: 203
Period size: 81 Copynumber: 2.2 Consensus size: 81
44472181 ATTACCTTTT
* * *
44472191 TACCCTCT-ATTTACAAAATTACTGAAATACCCTTGGTTTAAAAAAATACCAAAATACCCTCGAT
1 TACCC-CTGATTTGCAAAATTACTGAAATACCCCTGGCTTAAAAAAATACCAAAATACCCTCGAT
44472255 CAGTAAAATTACCAAAA
65 CAGTAAAATTACCAAAA
* * * * ** * * *
44472272 TACCCTTGGTTTGTAAAATTACTAAAATACCCCTGGCTTGTAAAATTACCAAAATACCCCTGGCT
1 TACCCCTGATTTGCAAAATTACTGAAATACCCCTGGCTTAAAAAAATACCAAAATA-CCCTCGAT
*
44472337 TA-TAAAATTACCAAAA
65 CAGTAAAATTACCAAAA
44472353 TACCCCTGATTTGC
1 TACCCCTGATTTGC
44472367 GAAGTTATCG
Statistics
Matches: 77, Mismatches: 16, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
80 1 0.01
81 69 0.90
82 7 0.09
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.29
Consensus pattern (81 bp):
TACCCCTGATTTGCAAAATTACTGAAATACCCCTGGCTTAAAAAAATACCAAAATACCCTCGATC
AGTAAAATTACCAAAA
Found at i:44472434 original size:27 final size:27
Alignment explanation
Indices: 44472401--44472562 Score: 209
Period size: 27 Copynumber: 6.0 Consensus size: 27
44472391 TGTAAAATAT
* *
44472401 CGAAATACCCCTATAGGGTAAAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
44472428 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
44472455 CGAAATACCCCTATAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
**
44472482 TAAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
** *
44472509 TAAAATACCCGTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * * *
44472536 CGAGA-ACCCTTGTGGGGTAAAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
44472562 C
1 C
44472563 ATTTTGCCCC
Statistics
Matches: 122, Mismatches: 13, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
26 19 0.16
27 103 0.84
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.23
Consensus pattern (27 bp):
CGAAATACCCCTGTAGGGTAGAATTAC
Found at i:44472803 original size:25 final size:25
Alignment explanation
Indices: 44472765--44472834 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
44472755 AGGAAGTGCT
* *
44472765 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
44472790 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
44472815 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
44472835 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:44472847 original size:24 final size:24
Alignment explanation
Indices: 44472764--44472859 Score: 95
Period size: 25 Copynumber: 3.9 Consensus size: 24
44472754 GAGGAAGTGC
*
44472764 TAAAAGGGCTATGCCCCAGTTTACC
1 TAAAAGGGCTATGCCCCAGTTTA-T
* *
44472789 GAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTATGCCCCAGTTTAT
* *
44472813 CAAAAAGGGCTTTGCCCCAG-TTAT
1 -TAAAAGGGCTATGCCCCAGTTTAT
*
44472837 TAAAAGAGGCTAGGCCTCCAGTT
1 TAAAAG-GGCTATGCC-CCAGTT
44472860 ATATGATAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
23 5 0.08
24 11 0.18
25 43 0.72
26 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (24 bp):
TAAAAGGGCTATGCCCCAGTTTAT
Found at i:44472858 original size:50 final size:50
Alignment explanation
Indices: 44472765--44472859 Score: 113
Period size: 50 Copynumber: 1.9 Consensus size: 50
44472755 AGGAAGTGCT
**
44472765 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
* **
44472815 AAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGCTAGGCCTCCAGTT
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAG-GGCTAGGCC-CCAGTT
44472860 ATATGATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
48 5 0.13
49 10 0.26
50 23 0.61
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.24
Consensus pattern (50 bp):
AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
Found at i:44482259 original size:30 final size:30
Alignment explanation
Indices: 44482223--44482283 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
44482213 TTCCTGAGCC
*
44482223 TAGGGGCAAAAGTATAATTATGCAAAAGTT
1 TAGGGGCAAAAATATAATTATGCAAAAGTT
* *
44482253 TAGGGGCAAAAATATAATTTTGCCAAAGTT
1 TAGGGGCAAAAATATAATTATGCAAAAGTT
44482283 T
1 T
44482284 GTATTAAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAATATAATTATGCAAAAGTT
Found at i:44490768 original size:30 final size:30
Alignment explanation
Indices: 44490732--44490791 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
44490722 ATTTAATACG
*
44490732 AACTTTTACAAAATTACATTTTTGCCCCTA
1 AACTTTTACAAAATTACACTTTTGCCCCTA
* *
44490762 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTTACAAAATTACACTTTTGCCCCTA
44490792 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.05, T:0.40
Consensus pattern (30 bp):
AACTTTTACAAAATTACACTTTTGCCCCTA
Found at i:44494723 original size:40 final size:39
Alignment explanation
Indices: 44494657--44494807 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 39
44494647 AAATTGAATG
* * *
44494657 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GGTAATT
* * ***
44494696 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GGTAATT
*
44494736 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCG-GTAATT
* *
44494776 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
44494808 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
39 16 0.17
40 74 0.80
41 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGGTAATT
Found at i:44494821 original size:40 final size:39
Alignment explanation
Indices: 44494694--44494823 Score: 161
Period size: 40 Copynumber: 3.3 Consensus size: 39
44494684 ATGCTGGAAA
* *
44494694 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-TGG
* * * **
44494734 CTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATGG
*
44494774 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA-ATGG
44494814 TTATATCCGG
1 TTATATCCGG
44494824 TTATATTCCG
Statistics
Matches: 74, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
39 1 0.01
40 72 0.97
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAATGG
Found at i:44505441 original size:39 final size:39
Alignment explanation
Indices: 44505294--44505474 Score: 229
Period size: 39 Copynumber: 4.6 Consensus size: 39
44505284 AATGTTCGAG
44505294 TGATATCCGGGCTAAGCCCGAAGGCAATTGT-CGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
44505332 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
44505371 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * ** *
44505410 TGATATCCGGGTTAAGTCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
** * *
44505449 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
44505475 GTTTGAACGA
Statistics
Matches: 122, Mismatches: 19, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
38 30 0.25
39 84 0.69
40 8 0.07
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:44508451 original size:13 final size:14
Alignment explanation
Indices: 44508433--44508463 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
44508423 TTTTTTCATC
44508433 ATAATAAAA-TAAA
1 ATAATAAAAGTAAA
44508446 ATAATAAAAGTAAA
1 ATAATAAAAGTAAA
44508460 ATAA
1 ATAA
44508464 AACCATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (14 bp):
ATAATAAAAGTAAA
Found at i:44508471 original size:19 final size:19
Alignment explanation
Indices: 44508437--44508473 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
44508427 TTCATCATAA
*
44508437 TAAAATAAAATAATAAAAG
1 TAAAATAAAACAATAAAAG
*
44508456 TAAAATAAAACCATAAAA
1 TAAAATAAAACAATAAAA
44508474 ATAATTAAGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.73, C:0.05, G:0.03, T:0.19
Consensus pattern (19 bp):
TAAAATAAAACAATAAAAG
Found at i:44508989 original size:27 final size:28
Alignment explanation
Indices: 44508937--44509014 Score: 97
Period size: 27 Copynumber: 2.8 Consensus size: 28
44508927 GTGACAGAGT
* *
44508937 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATATTATGTGGCAGGGC
*
44508966 CACCAGAACAGATA-TATGTGGCAGGGT
1 CACCAGAACAGATATTATGTGGCAGGGC
44508993 CACCAGAACAGATAATT-TGTGG
1 CACCAGAACAGAT-ATTATGTGG
44509015 TATAGCCACC
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
27 23 0.52
28 13 0.30
29 8 0.18
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.23
Consensus pattern (28 bp):
CACCAGAACAGATATTATGTGGCAGGGC
Found at i:44509024 original size:28 final size:27
Alignment explanation
Indices: 44508937--44509026 Score: 92
Period size: 27 Copynumber: 3.2 Consensus size: 27
44508927 GTGACAGAGT
*
44508937 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
* * *
44508966 CACCAGAACAGAT-ATATGTGGCAGGGT
1 CACCAGAACAGATAATTTGTGGCA-TGC
*
44508993 CACCAGAACAGATAATTTGTGGTATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
44509021 CACCAG
1 CACCAG
44509027 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
27 23 0.45
28 21 0.41
29 7 0.14
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.22
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:44509179 original size:28 final size:28
Alignment explanation
Indices: 44509132--44509223 Score: 141
Period size: 28 Copynumber: 3.3 Consensus size: 28
44509122 AAATTAACCC
*
44509132 TAGGGGTATAGA-GGTCATTTTGCATACA
1 TAGGGGTATA-ATGGTAATTTTGCATACA
44509160 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
* *
44509188 TAAGGGTATAATGGTAATTTTTCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
44509216 TAGGGGTA
1 TAGGGGTA
44509224 CTCTAGTACA
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
27 1 0.02
28 58 0.98
ACGTcount: A:0.32, C:0.08, G:0.26, T:0.35
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:44514177 original size:9 final size:9
Alignment explanation
Indices: 44514163--44514311 Score: 103
Period size: 9 Copynumber: 16.9 Consensus size: 9
44514153 TGATATTTAT
*
44514163 TTATGTTAG
1 TTATGTAAG
*
44514172 TTATGTAAA
1 TTATGTAAG
44514181 TTATGTAAG
1 TTATGTAAG
44514190 TTATGTAAG
1 TTATGTAAG
*
44514199 TTATG-ACAT
1 TTATGTA-AG
*
44514208 TTATGATATG
1 TTATG-TAAG
* * *
44514218 ATATAT-AT
1 TTATGTAAG
44514226 TTATGT-A-
1 TTATGTAAG
44514233 TTATGTAAG
1 TTATGTAAG
*
44514242 TTATGATATG
1 TTATG-TAAG
* * *
44514252 ATATAT-AT
1 TTATGTAAG
*
44514260 TTATATAAG
1 TTATGTAAG
44514269 TTATGTAAG
1 TTATGTAAG
*
44514278 TTATGTATG
1 TTATGTAAG
*
44514287 TTATGTGAG
1 TTATGTAAG
44514296 -TATGTAAG
1 TTATGTAAG
44514304 TTATGTAA
1 TTATGTAA
44514312 TTTTAAAGAA
Statistics
Matches: 108, Mismatches: 24, Indels: 16
0.73 0.16 0.11
Matches are distributed among these distances:
7 6 0.06
8 19 0.18
9 73 0.68
10 9 0.08
11 1 0.01
ACGTcount: A:0.34, C:0.01, G:0.17, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:44514246 original size:34 final size:36
Alignment explanation
Indices: 44514190--44514286 Score: 130
Period size: 34 Copynumber: 2.8 Consensus size: 36
44514180 ATTATGTAAG
* *
44514190 TTATGTAAGTTATG-ACATTTATGATATGATATATAT
1 TTATATAAGTTATGTA-AGTTATGATATGATATATAT
*
44514226 TTATGT-A-TTATGTAAGTTATGATATGATATATAT
1 TTATATAAGTTATGTAAGTTATGATATGATATATAT
44514260 TTATATAAGTTATGTAAGTTATG-TATG
1 TTATATAAGTTATGTAAGTTATGATATG
44514287 TTATGTGAGT
Statistics
Matches: 56, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
34 29 0.52
35 7 0.12
36 20 0.36
ACGTcount: A:0.35, C:0.01, G:0.15, T:0.48
Consensus pattern (36 bp):
TTATATAAGTTATGTAAGTTATGATATGATATATAT
Found at i:44518761 original size:40 final size:41
Alignment explanation
Indices: 44518701--44518873 Score: 185
Period size: 40 Copynumber: 4.3 Consensus size: 41
44518691 AGCATTTGAA
* *
44518701 TATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGAT
1 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGATGAT
* * *
44518741 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-T
1 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGATGAT
* * *
44518781 CATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGAT-AC
1 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGATGAT
* * * * * *
44518821 CAAATCCGGGTTAAGACCCGAAGGCAATTGTGCTTG-TGGT
1 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGATGAT
44518861 TATATCC-GGCTAA
1 TATATCCGGGCTAA
44518874 ATTCCGAAGA
Statistics
Matches: 111, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
39 6 0.05
40 103 0.93
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (41 bp):
TATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGATGAT
Found at i:44518866 original size:80 final size:80
Alignment explanation
Indices: 44518701--44518873 Score: 208
Period size: 80 Copynumber: 2.2 Consensus size: 80
44518691 AGCATTTGAA
* * ** *
44518701 TATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTGACCAAATCCGGGCTAAGACCCGAAGGC
*
44518766 ATTCGTGCGAGTTGT
66 ATTCGTGCGAGTGGT
* * *
44518781 CATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGAT-ACCAAATCCGGGTTAAGACCCGAAGG
1 TATATCCGGGCTAAGACCCGAAGGCATTTATGCAAG-TGACCAAATCCGGGCTAAGACCCGAAGG
**
44518845 CAATT-GTGCTTGTGGT
65 C-ATTCGTGCGAGTGGT
44518861 TATATCC-GGCTAA
1 TATATCCGGGCTAA
44518874 ATTCCGAAGA
Statistics
Matches: 79, Mismatches: 12, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
79 6 0.08
80 69 0.87
81 4 0.05
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
TATATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTGACCAAATCCGGGCTAAGACCCGAAGGC
ATTCGTGCGAGTGGT
Found at i:44529964 original size:50 final size:50
Alignment explanation
Indices: 44529902--44530003 Score: 204
Period size: 50 Copynumber: 2.0 Consensus size: 50
44529892 AAGAAGTAGT
44529902 TTTAATAAAAATTAAAAATATAAAATAATAATTAAATGTTTTTAAACATC
1 TTTAATAAAAATTAAAAATATAAAATAATAATTAAATGTTTTTAAACATC
44529952 TTTAATAAAAATTAAAAATATAAAATAATAATTAAATGTTTTTAAACATC
1 TTTAATAAAAATTAAAAATATAAAATAATAATTAAATGTTTTTAAACATC
44530002 TT
1 TT
44530004 CATCGTTGGA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (50 bp):
TTTAATAAAAATTAAAAATATAAAATAATAATTAAATGTTTTTAAACATC
Found at i:44531889 original size:13 final size:13
Alignment explanation
Indices: 44531871--44531895 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44531861 TGTGGGTGCA
44531871 CACGGCTGTGTCG
1 CACGGCTGTGTCG
44531884 CACGGCTGTGTC
1 CACGGCTGTGTC
44531896 TGACTTTGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.32, G:0.36, T:0.24
Consensus pattern (13 bp):
CACGGCTGTGTCG
Found at i:44552554 original size:51 final size:49
Alignment explanation
Indices: 44552390--44552577 Score: 241
Period size: 49 Copynumber: 3.8 Consensus size: 49
44552380 TAGCCAAAGC
* * * * *
44552390 TATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCAAT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* * * *
44552439 TATCCTGTACACGTAGTAGCCTACACTTAGTACCACACACGTGACCAAT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
*
44552488 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGATCACAGT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAAT
* * *
44552539 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACA
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACA
44552578 GGCGACCTCA
Statistics
Matches: 120, Mismatches: 17, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
49 80 0.67
50 1 0.01
51 39 0.32
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.26
Consensus pattern (49 bp):
TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:44554765 original size:15 final size:15
Alignment explanation
Indices: 44554710--44554773 Score: 64
Period size: 15 Copynumber: 4.4 Consensus size: 15
44554700 TAAAGATAAC
*
44554710 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
44554724 AA-AAATCCA-AGATA
1 AAGAAATCCAGA-ATA
*
44554738 GAA-AAACCCAGAATA
1 -AAGAAATCCAGAATA
44554753 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
44554768 AAGAAA
1 AAGAAA
44554774 CCCAAGATAC
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
13 6 0.14
14 7 0.17
15 28 0.67
16 1 0.02
ACGTcount: A:0.64, C:0.14, G:0.12, T:0.09
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:44554775 original size:30 final size:30
Alignment explanation
Indices: 44554710--44554777 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 30
44554700 TAAAGATAAC
*
44554710 AAGAAAACC-GAATAAAAAATCCAAGATAG
1 AAGAAACCCAGAATAAAAAATCCAAGATAG
44554739 AA-AAACCCAGAATAAAGAAATCC-AGAATA-
1 AAGAAACCCAGAATAAA-AAATCCAAG-ATAG
44554768 AAGAAACCCA
1 AAGAAACCCA
44554778 AGATACGATA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
28 5 0.15
29 13 0.38
30 16 0.47
ACGTcount: A:0.62, C:0.18, G:0.12, T:0.09
Consensus pattern (30 bp):
AAGAAACCCAGAATAAAAAATCCAAGATAG
Found at i:44557910 original size:28 final size:28
Alignment explanation
Indices: 44557878--44557961 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
44557868 ATTATCCGGT
44557878 ACACGTAGTAGCCTGCACTTAGTACTAC
1 ACACGTAGTAGCCTGCACTTAGTACTAC
* * *
44557906 ACACGT-G-A-CCT-AAC-CA-T-CTGAT
1 ACACGTAGTAGCCTGCACTTAGTACT-AC
44557928 ACACGTAGTAGCCTGCACTTAGTACTAC
1 ACACGTAGTAGCCTGCACTTAGTACTAC
44557956 ACACGT
1 ACACGT
44557962 GATCACAGTT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.24
Consensus pattern (28 bp):
ACACGTAGTAGCCTGCACTTAGTACTAC
Found at i:44557952 original size:50 final size:49
Alignment explanation
Indices: 44557785--44558009 Score: 297
Period size: 49 Copynumber: 4.5 Consensus size: 49
44557775 CTGGTACGCA
* * *
44557785 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
*
44557834 TAGTAGCCTGCACTTAGTACTACACACCTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
** * *
44557883 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGGTACACG
* * * ** *
44557933 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCAGGTATGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAATTATCCGGTACACG
44557984 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
44558010 TGCACCTCAC
Statistics
Matches: 155, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
49 77 0.50
50 43 0.28
51 34 0.22
52 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
Found at i:44557956 original size:99 final size:100
Alignment explanation
Indices: 44557772--44558009 Score: 309
Period size: 99 Copynumber: 2.4 Consensus size: 100
44557762 TAGCCAAAGC
* * * * ** *
44557772 TATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACGTAG
1 TATCAGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACCATCCGATACACGTAG
44557837 TAGCCTGCACTTAGTACTACACACCTGA-C-CAAT
66 TAGCCTGCACTTAGTACTACACACCTGATCACAAT
* * * *
44557870 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTA
1 TATCAGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC-AACCATCCGATACACGTA
* *
44557935 GTAGCCTGCACTTAGTACTACACACGTGATCACAGT
65 GTAGCCTGCACTTAGTACTACACACCTGATCACAAT
* **
44557971 TTTCAGGTATGCATAGTAGCCTGCACTTAGTACTACACA
1 TATCAGGTACACATAGTAGCCTGCACTTAGTACTACACA
44558010 TGCACCTCAC
Statistics
Matches: 120, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
98 40 0.33
99 42 0.35
100 1 0.01
101 37 0.31
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.26
Consensus pattern (100 bp):
TATCAGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACCATCCGATACACGTAG
TAGCCTGCACTTAGTACTACACACCTGATCACAAT
Found at i:44560328 original size:7 final size:7
Alignment explanation
Indices: 44560316--44560418 Score: 71
Period size: 7 Copynumber: 14.7 Consensus size: 7
44560306 CAAATTTTAT
44560316 CCCTAAA
1 CCCTAAA
*
44560323 CCCTAAT
1 CCCTAAA
*
44560330 GCCTAAA
1 CCCTAAA
*
44560337 CCCTAGA
1 CCCTAAA
44560344 CCCTAAA
1 CCCTAAA
* *
44560351 CCATATA
1 CCCTAAA
*
44560358 CCATAAA
1 CCCTAAA
**
44560365 TACTAAA
1 CCCTAAA
*
44560372 TCCTAAA
1 CCCTAAA
44560379 CCCTAAA
1 CCCTAAA
** *
44560386 CTATACA
1 CCCTAAA
44560393 CCCTAAA
1 CCCTAAA
*
44560400 CTCTAAA
1 CCCTAAA
* *
44560407 TCTTAAA
1 CCCTAAA
44560414 CCCTA
1 CCCTA
44560419 TATATTATAA
Statistics
Matches: 70, Mismatches: 26, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
7 70 1.00
ACGTcount: A:0.42, C:0.34, G:0.02, T:0.22
Consensus pattern (7 bp):
CCCTAAA
Found at i:44560382 original size:35 final size:35
Alignment explanation
Indices: 44560332--44560418 Score: 104
Period size: 35 Copynumber: 2.5 Consensus size: 35
44560322 ACCCTAATGC
* * *
44560332 CTAAACCCTAGACCCTAAACCATATACCATAAA-T
1 CTAAATCCTAAACCCTAAACCATACACCATAAACT
* *
44560366 ACTAAATCCTAAACCCTAAACTATACACCCTAAACT
1 -CTAAATCCTAAACCCTAAACCATACACCATAAACT
*
44560402 CTAAATCTTAAACCCTA
1 CTAAATCCTAAACCCTA
44560419 TATATTATAA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
35 44 0.98
36 1 0.02
ACGTcount: A:0.44, C:0.32, G:0.01, T:0.23
Consensus pattern (35 bp):
CTAAATCCTAAACCCTAAACCATACACCATAAACT
Found at i:44560754 original size:41 final size:40
Alignment explanation
Indices: 44560705--44560947 Score: 227
Period size: 41 Copynumber: 5.9 Consensus size: 40
44560695 TTTTATGGTG
* *
44560705 TTTTTGATAAAAACGCCGCTATTGCTTGACCTTTTACAGCA
1 TTTTT-ATATAAACGCCGCTATTGCTTGACCTTTTGCAGCA
* * * * *
44560746 TTTATGATAAAAATGCCACTACTGCTTGACCTTTTGCAGCA
1 TTT-TTATATAAACGCCGCTATTGCTTGACCTTTTGCAGCA
* * * * * *
44560787 TTTTTATTATACACTCTGCTATTGCTTGAACTTTTGTAGCG
1 TTTTTA-TATAAACGCCGCTATTGCTTGACCTTTTGCAGCA
*
44560828 TTTTTATCATAAACACCGCTACTT-CTTGACCTTTTGCAGCA
1 TTTTTAT-ATAAACGCCGCTA-TTGCTTGACCTTTTGCAGCA
* * * *
44560869 TTTTTATCATACACTCCGCTATTGCTTGACCTTTTGTAGCG
1 TTTTTAT-ATAAACGCCGCTATTGCTTGACCTTTTGCAGCA
* * *
44560910 TTTTTATCATAAACACAGCTACTGCTTGACCTTTTGCA
1 TTTTTAT-ATAAACGCCGCTATTGCTTGACCTTTTGCA
44560948 AACGCCACTA
Statistics
Matches: 166, Mismatches: 31, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
40 5 0.03
41 158 0.95
42 3 0.02
ACGTcount: A:0.24, C:0.23, G:0.13, T:0.40
Consensus pattern (40 bp):
TTTTTATATAAACGCCGCTATTGCTTGACCTTTTGCAGCA
Found at i:44560850 original size:82 final size:82
Alignment explanation
Indices: 44560764--44560947 Score: 323
Period size: 82 Copynumber: 2.2 Consensus size: 82
44560754 AAAAATGCCA
* *
44560764 CTACTGCTTGACCTTTTGCAGCATTTTTATTATACACTCTGCTATTGCTTGAACTTTTGTAGCGT
1 CTACTGCTTGACCTTTTGCAGCATTTTTATCATACACTCCGCTATTGCTTGAACTTTTGTAGCGT
*
44560829 TTTTATCATAAACACCG
66 TTTTATCATAAACACAG
* *
44560846 CTACTTCTTGACCTTTTGCAGCATTTTTATCATACACTCCGCTATTGCTTGACCTTTTGTAGCGT
1 CTACTGCTTGACCTTTTGCAGCATTTTTATCATACACTCCGCTATTGCTTGAACTTTTGTAGCGT
44560911 TTTTATCATAAACACAG
66 TTTTATCATAAACACAG
44560928 CTACTGCTTGACCTTTTGCA
1 CTACTGCTTGACCTTTTGCA
44560948 AACGCCACTA
Statistics
Matches: 96, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
82 96 1.00
ACGTcount: A:0.21, C:0.24, G:0.13, T:0.42
Consensus pattern (82 bp):
CTACTGCTTGACCTTTTGCAGCATTTTTATCATACACTCCGCTATTGCTTGAACTTTTGTAGCGT
TTTTATCATAAACACAG
Found at i:44561359 original size:7 final size:7
Alignment explanation
Indices: 44561347--44561437 Score: 65
Period size: 7 Copynumber: 13.0 Consensus size: 7
44561337 CAAATTTTAT
44561347 CCCTAAA
1 CCCTAAA
*
44561354 CCCTAAT
1 CCCTAAA
* *
44561361 GCTTAAA
1 CCCTAAA
*
44561368 CCCTAGA
1 CCCTAAA
44561375 CCCTAAA
1 CCCTAAA
*
44561382 CCATAAA
1 CCCTAAA
*
44561389 CCATAAA
1 CCCTAAA
**
44561396 TACTAAA
1 CCCTAAA
*
44561403 TCCTAAA
1 CCCTAAA
44561410 CCCTAAA
1 CCCTAAA
** *
44561417 CTATATA
1 CCCTAAA
44561424 CCCTAAA
1 CCCTAAA
*
44561431 CTCTAAA
1 CCCTAAA
44561438 TATTAAACCC
Statistics
Matches: 63, Mismatches: 21, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
7 63 1.00
ACGTcount: A:0.44, C:0.32, G:0.02, T:0.22
Consensus pattern (7 bp):
CCCTAAA
Found at i:44561413 original size:35 final size:35
Alignment explanation
Indices: 44561364--44561449 Score: 93
Period size: 35 Copynumber: 2.5 Consensus size: 35
44561354 CCCTAATGCT
* *
44561364 TAAACCCTAGACCCTAAACCATAAACCATAAA-TAC
1 TAAATCCTAAACCCTAAACCATAAACCATAAACT-C
* * *
44561399 TAAATCCTAAACCCTAAACTATATACCCTAAACTC
1 TAAATCCTAAACCCTAAACCATAAACCATAAACTC
**
44561434 TAAATATTAAACCCTA
1 TAAATCCTAAACCCTA
44561450 TATATATTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
35 42 0.98
36 1 0.02
ACGTcount: A:0.47, C:0.29, G:0.01, T:0.23
Consensus pattern (35 bp):
TAAATCCTAAACCCTAAACCATAAACCATAAACTC
Found at i:44561447 original size:21 final size:19
Alignment explanation
Indices: 44561378--44561449 Score: 63
Period size: 21 Copynumber: 3.5 Consensus size: 19
44561368 CCCTAGACCC
*
44561378 TAAACCATAAACCATAAATA
1 TAAACCCTAAACC-TAAATA
*
44561398 CTAAATCCTAAACCCTAAACTA
1 -TAAACCCTAAA-CCTAAA-TA
*
44561420 TATACCCTAAACTCTAAATA
1 TAAACCCTAAAC-CTAAATA
44561440 TTAAACCCTA
1 -TAAACCCTA
44561450 TATATATTAT
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
20 3 0.07
21 35 0.83
22 4 0.10
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.25
Consensus pattern (19 bp):
TAAACCCTAAACCTAAATA
Found at i:44561847 original size:82 final size:80
Alignment explanation
Indices: 44561752--44561976 Score: 299
Period size: 82 Copynumber: 2.7 Consensus size: 80
44561742 GATAAAAACG
** * *
44561752 CCGCTATTGCTTGACCTTTTACAGCGTTTATGATAAAAATGCCACTACTGCTTGACCTTTTGCAG
1 CCGCTATTGCTTGACCTTTTGTAGCGTTTATCATAAAAA--CCACTACTGCTTGACCTTTTACAG
44561817 CATTTTTATCATACACT
64 CATTTTTATCATACACT
* * *
44561834 CCGCTATTGCTTGACCTTTTGTAGCGTTTTTATCATAAACACCGCTATTGCTTGACCTTTTACAG
1 CCGCTATTGCTTGACCTTTTGTAGCG--TTTATCATAAAAACCACTACTGCTTGACCTTTTACAG
44561899 CATTTTTATCATACACT
64 CATTTTTATCATACACT
* *
44561916 CCGCTATTGCTTGACCTTTTGTAGCGTTTTTATCATAAACA-CAGCTACTGTTTGACCTTTT
1 CCGCTATTGCTTGACCTTTTGTAGCG--TTTATCATAAAAACCA-CTACTGCTTGACCTTTT
44561977 GCAAATGCCA
Statistics
Matches: 130, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
81 1 0.01
82 118 0.91
84 11 0.08
ACGTcount: A:0.22, C:0.24, G:0.13, T:0.40
Consensus pattern (80 bp):
CCGCTATTGCTTGACCTTTTGTAGCGTTTATCATAAAAACCACTACTGCTTGACCTTTTACAGCA
TTTTTATCATACACT
Found at i:44561971 original size:123 final size:123
Alignment explanation
Indices: 44561747--44561977 Score: 304
Period size: 123 Copynumber: 1.9 Consensus size: 123
44561737 TTTTTGATAA
* *
44561747 AAACGCCGCTATTGCTTGACCTTTTACAGCGTTTATGATAAAAATGCCACTACTGCTTGACCTTT
1 AAACACCGCTATTGCTTGACCTTTTACAGCGTTTATCATAAAAATGCCACTACTGCTTGACCTTT
* * * *
44561812 TGCAGCATTTTTATCATACACTCCGCTATTGCTTGACCTTTTGTAGCGTTTTTATCAT
66 TGCAGCATTTTTATCATAAACACAGCTACTGCTTGACCTTTTGTAGCGTTTTTATCAT
* * * * *
44561870 AAACACCGCTATTGCTTGACCTTTTACAGCATTTTTATCAT-ACACT-CCGCTATTGCTTGACCT
1 AAACACCGCTATTGCTTGACCTTTTACAGC--GTTTATCATAAAAATGCCACTACTGCTTGACCT
* * *
44561933 TTTGTAGCGTTTTTATCATAAACACAGCTACTGTTTGACCTTTTG
64 TTTGCAGCATTTTTATCATAAACACAGCTACTGCTTGACCTTTTG
44561978 CAAATGCCAC
Statistics
Matches: 92, Mismatches: 14, Indels: 4
0.84 0.13 0.04
Matches are distributed among these distances:
123 82 0.89
124 3 0.03
125 7 0.08
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.39
Consensus pattern (123 bp):
AAACACCGCTATTGCTTGACCTTTTACAGCGTTTATCATAAAAATGCCACTACTGCTTGACCTTT
TGCAGCATTTTTATCATAAACACAGCTACTGCTTGACCTTTTGTAGCGTTTTTATCAT
Found at i:44561977 original size:41 final size:41
Alignment explanation
Indices: 44561747--44561979 Score: 263
Period size: 41 Copynumber: 5.7 Consensus size: 41
44561737 TTTTTGATAA
* * * *
44561747 AAACGCCGCTATTGCTTGACCTTTTACAGC--GTTTATGAT
1 AAACACCGCTATTGCTTGACCTTTTGCAGCATTTTTATCAT
* * *
44561786 AAAAATGCCACTACTGCTTGACCTTTTGCAGCATTTTTATCAT
1 AAACA--CCGCTATTGCTTGACCTTTTGCAGCATTTTTATCAT
* * * *
44561829 ACACTCCGCTATTGCTTGACCTTTTGTAGCGTTTTTATCAT
1 AAACACCGCTATTGCTTGACCTTTTGCAGCATTTTTATCAT
*
44561870 AAACACCGCTATTGCTTGACCTTTTACAGCATTTTTATCAT
1 AAACACCGCTATTGCTTGACCTTTTGCAGCATTTTTATCAT
* * * *
44561911 ACACTCCGCTATTGCTTGACCTTTTGTAGCGTTTTTATCAT
1 AAACACCGCTATTGCTTGACCTTTTGCAGCATTTTTATCAT
* * *
44561952 AAACACAGCTACTGTTTGACCTTTTGCA
1 AAACACCGCTATTGCTTGACCTTTTGCA
44561980 AATGCCACTA
Statistics
Matches: 160, Mismatches: 30, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
39 3 0.02
41 148 0.93
43 9 0.06
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.39
Consensus pattern (41 bp):
AAACACCGCTATTGCTTGACCTTTTGCAGCATTTTTATCAT
Found at i:44563671 original size:46 final size:46
Alignment explanation
Indices: 44563508--44563680 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
44563498 TGGTTGGCAT
*
44563508 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-A-GT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
44563552 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
44563597 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
44563645 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
44563681 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:44566652 original size:15 final size:15
Alignment explanation
Indices: 44566632--44566700 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
44566622 GTATCTTGGG
44566632 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
44566647 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
44566662 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
44566677 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
44566692 TTTCTTTAT
1 TTTCTTTAT
44566701 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:44566701 original size:30 final size:30
Alignment explanation
Indices: 44566623--44566710 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
44566613 CATAGTATCG
* * * *
44566623 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
44566653 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
44566683 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
44566711 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:44569142 original size:46 final size:46
Alignment explanation
Indices: 44569091--44569266 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
44569081 ATGGTTGGCA
44569091 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
44569137 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
44569182 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
44569230 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
44569267 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:44569246 original size:93 final size:93
Alignment explanation
Indices: 44569087--44569258 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
44569077 CTGGATGGTT
* *
44569087 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
44569152 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
44569180 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
44569245 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
44569259 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:44573139 original size:6 final size:6
Alignment explanation
Indices: 44573109--44573205 Score: 65
Period size: 6 Copynumber: 15.8 Consensus size: 6
44573099 AAGAAACATT
* * *
44573109 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATTAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * * *
44573157 ATTAG- GTGACAGA ATCAGA ATCAGT ATTAGGTA A-CAGA ATCAGA ATCAG
1 ATCAGA AT--CAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAG
44573206 TATTAGGTGA
Statistics
Matches: 69, Mismatches: 14, Indels: 16
0.70 0.14 0.16
Matches are distributed among these distances:
5 4 0.06
6 58 0.84
7 5 0.07
8 2 0.03
ACGTcount: A:0.47, C:0.12, G:0.20, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:44573170 original size:25 final size:25
Alignment explanation
Indices: 44573141--44573233 Score: 141
Period size: 25 Copynumber: 3.7 Consensus size: 25
44573131 GAATCAGAAT
*
44573141 CAGAATTAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGAATTAGGTGA
* *
44573166 CAGAATCAGAATCAGTATTAGGTAA
1 CAGAATCAGAATCAGAATTAGGTGA
*
44573191 CAGAATCAGAATCAGTATTAGGTGA
1 CAGAATCAGAATCAGAATTAGGTGA
*
44573216 CAGAATCAAAATCAGAAT
1 CAGAATCAGAATCAGAAT
44573234 GTGAATGCAA
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 62 1.00
ACGTcount: A:0.45, C:0.12, G:0.20, T:0.23
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATTAGGTGA
Found at i:44573391 original size:27 final size:26
Alignment explanation
Indices: 44573351--44573416 Score: 69
Period size: 27 Copynumber: 2.5 Consensus size: 26
44573341 AGCATGGCTG
* *
44573351 CCAGAACATATATTATGACAGAGTCA
1 CCAGAACAGATATTATGACAGAGCCA
* *
44573377 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTATGACAGAGCCA
*
44573404 CCAAAATCAGATA
1 CCAGAA-CAGATA
44573417 ATGTAGCAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
26 6 0.18
27 27 0.82
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.20
Consensus pattern (26 bp):
CCAGAACAGATATTATGACAGAGCCA
Found at i:44573550 original size:22 final size:23
Alignment explanation
Indices: 44573520--44573577 Score: 84
Period size: 22 Copynumber: 2.6 Consensus size: 23
44573510 ACAATAACAA
*
44573520 CACACAGCCATAAT-TAGGTTGG
1 CACAAAGCCATAATGTAGGTTGG
44573542 CACAAAGCCAT-ATGTAGGTTGG
1 CACAAAGCCATAATGTAGGTTGG
*
44573564 CGCAAAGCCATAAT
1 CACAAAGCCATAAT
44573578 CAGAATAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
21 2 0.06
22 28 0.88
23 2 0.06
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.21
Consensus pattern (23 bp):
CACAAAGCCATAATGTAGGTTGG
Found at i:44574124 original size:27 final size:27
Alignment explanation
Indices: 44574096--44574208 Score: 154
Period size: 27 Copynumber: 4.2 Consensus size: 27
44574086 GGCAAAATGG
* * * *
44574096 TAATTTTACCCCACAAGGGTATCTCGG
1 TAATTCTACCCTACAAGGGTATTTCGA
*
44574123 TAATTCTACCCTACAGGGGTATTTCGA
1 TAATTCTACCCTACAAGGGTATTTCGA
*
44574150 TATTTCTACCCTACAAGGGTATTTCGA
1 TAATTCTACCCTACAAGGGTATTTCGA
* *
44574177 TAATTCTACCCTACAGGGGTATTTCAA
1 TAATTCTACCCTACAAGGGTATTTCGA
44574204 TAATT
1 TAATT
44574209 TTGTAAATCG
Statistics
Matches: 76, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 76 1.00
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (27 bp):
TAATTCTACCCTACAAGGGTATTTCGA
Found at i:44574166 original size:54 final size:53
Alignment explanation
Indices: 44574098--44574210 Score: 172
Period size: 54 Copynumber: 2.1 Consensus size: 53
44574088 CAAAATGGTA
*
44574098 ATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGAT
1 ATTTTACCCCACAAGGGTATCTCGATAATTCTACCCTACAGGGGTATTTCGAT
* * *
44574151 ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAAT
1 ATTT-TACCCCACAAGGGTATCTCGATAATTCTACCCTACAGGGGTATTTCGAT
44574205 AATTTT
1 -ATTTT
44574211 GTAAATCGAG
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
53 4 0.07
54 46 0.85
55 4 0.07
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (53 bp):
ATTTTACCCCACAAGGGTATCTCGATAATTCTACCCTACAGGGGTATTTCGAT
Found at i:44574235 original size:54 final size:54
Alignment explanation
Indices: 44574120--44574238 Score: 125
Period size: 54 Copynumber: 2.2 Consensus size: 54
44574110 AAGGGTATCT
* ** ***
44574120 CGGTAATTCTACCCTACAGGGGTATTTCGATATTTCTACCCTACAAGGGTATTT
1 CGGTAATTCTACCCTACAGGGGTATTTCAATATTTCTACAATACAAGGGTAAAA
* * *
44574174 CGATAATTCTACCCTACAGGGGTATTTCAATAATTTTGTA-AAT-CGAGGGTAAAA
1 CGGTAATTCTACCCTACAGGGGTATTTCAAT-A-TTTCTACAATACAAGGGTAAAA
44574228 CGGTAATTCTA
1 CGGTAATTCTA
44574239 TAAATCAGGG
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
54 46 0.87
55 2 0.04
56 5 0.09
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.34
Consensus pattern (54 bp):
CGGTAATTCTACCCTACAGGGGTATTTCAATATTTCTACAATACAAGGGTAAAA
Found at i:44580831 original size:43 final size:43
Alignment explanation
Indices: 44580676--44580832 Score: 135
Period size: 43 Copynumber: 3.7 Consensus size: 43
44580666 ATGTGTTTTT
**
44580676 GTGTAAGACCACATCTGGGACGTTGGCATC-A-ACTTATGATTTAC
1 GTGTAAGACCATGTCTGGGACGTTGGCATCGATA-TT-TGA-TTAC
* * * * *
44580720 GTGTAAAACCATGTCTGTGACATCGACATCG-TATTTGATT-C
1 GTGTAAGACCATGTCTGGGACGTTGGCATCGATATTTGATTAC
* * *
44580761 GTGTAAGACCCTGTCTTGGATAG-TGGCATCGATATTTGATTAC
1 GTGTAAGACCATGTCTGGGA-CGTTGGCATCGATATTTGATTAC
* *
44580804 ATGTAAGACCGTGTCTGGGACGTTGGCAT
1 GTGTAAGACCATGTCTGGGACGTTGGCAT
44580833 TGTATGAGCT
Statistics
Matches: 88, Mismatches: 19, Indels: 13
0.73 0.16 0.11
Matches are distributed among these distances:
41 23 0.26
42 12 0.14
43 27 0.31
44 25 0.28
45 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (43 bp):
GTGTAAGACCATGTCTGGGACGTTGGCATCGATATTTGATTAC
Found at i:44583228 original size:27 final size:27
Alignment explanation
Indices: 44583190--44583402 Score: 157
Period size: 27 Copynumber: 7.9 Consensus size: 27
44583180 AGACTCCAAA
44583190 TTGTAAAATTACCAAAATACCCCCAGT
1 TTGTAAAATTACCAAAATACCCCCAGT
** *
44583217 TTGTAAAATTACTGAAATA-CCCCTGAT
1 TTGTAAAATTACCAAAATACCCCCAG-T
* ** *
44583244 TTATAAAATTACTGAAATACCCTCAGT
1 TTGTAAAATTACCAAAATACCCCCAGT
* *
44583271 TTGTAAAATTACCAAAATGCCCTC-GAT
1 TTGTAAAATTACCAAAATACCCCCAG-T
* * ** *
44583298 TTATAAAATTACTAAAATACTCCTAATT
1 TTGTAAAATTACCAAAATAC-CCCCAGT
** *
44583326 TTGTAAAATTACTGAAATA-CCCCTGT
1 TTGTAAAATTACCAAAATACCCCCAGT
*
44583352 AGTGTAAAATTACCAAAATACCCCTGCAG-
1 -TTGTAAAATTACCAAAATACCCC--CAGT
* *
44583381 -TGTAAAATTATCGAAATACCCC
1 TTGTAAAATTACCAAAATACCCC
44583403 TGTAGTGTAA
Statistics
Matches: 150, Mismatches: 27, Indels: 18
0.77 0.14 0.09
Matches are distributed among these distances:
26 9 0.06
27 111 0.74
28 28 0.19
30 2 0.01
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
TTGTAAAATTACCAAAATACCCCCAGT
Found at i:44583275 original size:54 final size:54
Alignment explanation
Indices: 44583193--44583404 Score: 236
Period size: 54 Copynumber: 3.9 Consensus size: 54
44583183 CTCCAAATTG
*
44583193 TAAAATTACCAAAATACCCCCAGTTTGTAAAATTACTGAAATACCCCTGATTTA
1 TAAAATTACCAAAATACCCTCAGTTTGTAAAATTACTGAAATACCCCTGATTTA
** ** *
44583247 TAAAATTACTGAAATACCCTCAGTTTGTAAAATTACCAAAAT-GCCCTCGATTTA
1 TAAAATTACCAAAATACCCTCAGTTTGTAAAATTACTGAAATACCCCT-GATTTA
* * * * *
44583301 TAAAATTACTAAAATACTCCTAATTTTGTAAAATTACTGAAATACCCCTG-TAGTG
1 TAAAATTACCAAAATAC-CCTCAGTTTGTAAAATTACTGAAATACCCCTGAT-TTA
44583356 TAAAATTACCAAAATACCCCTGCAG--TGTAAAATTA-TCGAAATACCCCTG
1 TAAAATTACCAAAATA-CCCT-CAGTTTGTAAAATTACT-GAAATACCCCTG
44583405 TAGTGTAAAA
Statistics
Matches: 134, Mismatches: 17, Indels: 14
0.81 0.10 0.08
Matches are distributed among these distances:
53 5 0.04
54 82 0.61
55 41 0.31
56 6 0.04
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (54 bp):
TAAAATTACCAAAATACCCTCAGTTTGTAAAATTACTGAAATACCCCTGATTTA
Found at i:44583385 original size:109 final size:107
Alignment explanation
Indices: 44583193--44583390 Score: 265
Period size: 109 Copynumber: 1.8 Consensus size: 107
44583183 CTCCAAATTG
* * **
44583193 TAAAATTACCAAAATACCCCCAGTTTGTAAAATTACTGAAATACCCCTGATTTATAAAATTACTG
1 TAAAATTACCAAAATACCCCAAGTTTGTAAAATTACTGAAATACCCCTGATGTATAAAATTACCA
44583258 AAATACCCTCAGTTTGTAAAATTACCAAAATGCCCTCGATTTA
66 AAATACCCTCAG-TTGTAAAATTACCAAAATGCCCTCGATTTA
* * * *
44583301 TAAAATTACTAAAATACTCCTAATTTTGTAAAATTACTGAAATACCCCTG-TAGTGTAAAATTAC
1 TAAAATTACCAAAATAC-CCCAAGTTTGTAAAATTACTGAAATACCCCTGAT-GTATAAAATTAC
44583365 CAAAATACCCCTGCAG-TGTAAAATTA
64 CAAAATA-CCCT-CAGTTGTAAAATTA
44583391 TCGAAATACC
Statistics
Matches: 78, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
108 17 0.22
109 54 0.69
110 4 0.05
111 3 0.04
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.31
Consensus pattern (107 bp):
TAAAATTACCAAAATACCCCAAGTTTGTAAAATTACTGAAATACCCCTGATGTATAAAATTACCA
AAATACCCTCAGTTGTAAAATTACCAAAATGCCCTCGATTTA
Found at i:44583403 original size:27 final size:26
Alignment explanation
Indices: 44583327--44583468 Score: 176
Period size: 27 Copynumber: 5.3 Consensus size: 26
44583317 CTCCTAATTT
44583327 TGTAAAATTACTGAAATACCCCTGTAG
1 TGTAAAATTAC-GAAATACCCCTGTAG
* *
44583354 TGTAAAATTACCAAAATACCCCTGCAG
1 TGTAAAATTA-CGAAATACCCCTGTAG
44583381 TGTAAAATTATCGAAATACCCCTGTAG
1 TGTAAAATTA-CGAAATACCCCTGTAG
**
44583408 TGTAAAATTATCGAAATACCTTTGTAG
1 TGTAAAATTA-CGAAATACCCCTGTAG
* *
44583435 TGTAAAATTACAGAAATACCTCTATAG
1 TGTAAAATTAC-GAAATACCCCTGTAG
*
44583462 GGTAAAA
1 TGTAAAA
44583469 CGACTGTTTT
Statistics
Matches: 103, Mismatches: 10, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
26 1 0.01
27 101 0.98
28 1 0.01
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (26 bp):
TGTAAAATTACGAAATACCCCTGTAG
Found at i:44583405 original size:54 final size:53
Alignment explanation
Indices: 44583191--44583468 Score: 208
Period size: 54 Copynumber: 5.1 Consensus size: 53
44583181 GACTCCAAAT
*
44583191 TGTAAAATTACCAAAATACCCC-CAGTTTGTAAAATTACTGAAATACCCCTG-ATT
1 TGTAAAATTACCAAAATACCCCTCAG--TGTAAAATTACTGAAATACCCCTGTA-G
* ** ** * *
44583245 TATAAAATTACTGAAATA-CCCTCAGTTTGTAAAATTACCAAAAT-GCCCTCG-ATT
1 TGTAAAATTACCAAAATACCCCTCAG--TGTAAAATTACTGAAATACCCCT-GTA-G
* * * * *
44583299 TATAAAATTACTAAAATACTCCTAATTTTGTAAAATTACTGAAATACCCCTGTAG
1 TGTAAAATTACCAAAATACCCCTCA--GTGTAAAATTACTGAAATACCCCTGTAG
44583354 TGTAAAATTACCAAAATACCCCTGCAGTGTAAAATTA-TCGAAATACCCCTGTAG
1 TGTAAAATTACCAAAATACCCCT-CAGTGTAAAATTACT-GAAATACCCCTGTAG
* * ** * * * *
44583408 TGTAAAATTATCGAAATACCTTTGTAGTGTAAAATTACAGAAATACCTCTATAG
1 TGTAAAATTACCAAAATACCCCT-CAGTGTAAAATTACTGAAATACCCCTGTAG
*
44583462 GGTAAAA
1 TGTAAAA
44583469 CGACTGTTTT
Statistics
Matches: 186, Mismatches: 28, Indels: 20
0.79 0.12 0.09
Matches are distributed among these distances:
53 8 0.04
54 132 0.71
55 40 0.22
56 6 0.03
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.31
Consensus pattern (53 bp):
TGTAAAATTACCAAAATACCCCTCAGTGTAAAATTACTGAAATACCCCTGTAG
Found at i:44583414 original size:109 final size:107
Alignment explanation
Indices: 44583191--44583427 Score: 248
Period size: 109 Copynumber: 2.2 Consensus size: 107
44583181 GACTCCAAAT
* *
44583191 TGTAAAATTACCAAAATACCCCCAGTTTGTAAAATTACTGAAATACCCCTGATTTATAAAATTAC
1 TGTAAAATTACCAAAATACCCCAAGTTTGTAAAATTACTGAAATACCCCTGATGTATAAAATTAC
** * *
44583256 TGAAATACCCTCAGTTTGTAAAATTACCAAAATGCCCTCGATT
66 CAAAATACCCTCAG-TTGTAAAATTACCAAAATCCCCTCGATG
* * * * *
44583299 TATAAAATTACTAAAATACTCCTAATTTTGTAAAATTACTGAAATACCCCTG-TAGTGTAAAATT
1 TGTAAAATTACCAAAATAC-CCCAAGTTTGTAAAATTACTGAAATACCCCTGAT-GTATAAAATT
* *
44583363 ACCAAAATACCCCTGCAG-TGTAAAATTATCGAAATACCCCT-G-TAG
64 ACCAAAATA-CCCT-CAGTTGTAAAATTACCAAAAT-CCCCTCGAT-G
* *
44583408 TGTAAAATTATCGAAATACC
1 TGTAAAATTACCAAAATACC
44583428 TTTGTAGTGT
Statistics
Matches: 106, Mismatches: 17, Indels: 12
0.79 0.13 0.09
Matches are distributed among these distances:
108 20 0.19
109 75 0.71
110 8 0.08
111 3 0.03
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (107 bp):
TGTAAAATTACCAAAATACCCCAAGTTTGTAAAATTACTGAAATACCCCTGATGTATAAAATTAC
CAAAATACCCTCAGTTGTAAAATTACCAAAATCCCCTCGATG
Found at i:44583442 original size:81 final size:80
Alignment explanation
Indices: 44583191--44583454 Score: 263
Period size: 81 Copynumber: 3.2 Consensus size: 80
44583181 GACTCCAAAT
*
44583191 TGTAAAATTACCAAAATACCCC-CAGTTTGTAAAATTACTGAAATACCCCTG-ATTTATAAAATT
1 TGTAAAATTACCAAAATACCCCTCAG--TGTAAAATTACTGAAATACCCCTGTA-TTGTAAAATT
* *
44583254 ACTGAAATACCCTCAGT-T
63 ACTGAAATA-CCTCTGTAG
* * * * * * *
44583272 TGTAAAATTACCAAAAT-GCCCTCGATTTATAAAATTACTAAAATACTCCTAATTTTGTAAAATT
1 TGTAAAATTACCAAAATACCCCTC-A-GTGTAAAATTACTGAAATACCCCT-GTATTGTAAAATT
*
44583336 ACTGAAATACCCCTGTAG
63 ACTGAAATACCTCTGTAG
*
44583354 TGTAAAATTACCAAAATACCCCTGCAGTGTAAAATTA-TCGAAATACCCCTGTAGTGTAAAATTA
1 TGTAAAATTACCAAAATACCCCT-CAGTGTAAAATTACT-GAAATACCCCTGTATTGTAAAATTA
*
44583418 -TCGAAATACCTTTGTAG
64 CT-GAAATACCTCTGTAG
44583435 TGTAAAATTA-CAGAAATACC
1 TGTAAAATTACCA-AAATACC
44583455 TCTATAGGGT
Statistics
Matches: 151, Mismatches: 21, Indels: 22
0.78 0.11 0.11
Matches are distributed among these distances:
80 6 0.04
81 85 0.56
82 54 0.36
83 5 0.03
84 1 0.01
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (80 bp):
TGTAAAATTACCAAAATACCCCTCAGTGTAAAATTACTGAAATACCCCTGTATTGTAAAATTACT
GAAATACCTCTGTAG
Found at i:44583945 original size:27 final size:27
Alignment explanation
Indices: 44583854--44583956 Score: 89
Period size: 27 Copynumber: 3.8 Consensus size: 27
44583844 TATCTTGATT
* * *
44583854 ATGGCTTTGTGCCAATTATATTTACCT
1 ATGGCTTTGTGCCGATCATATTTACCC
* * * ***
44583881 GTGGCTATGTGCCTATCATATTTATTG
1 ATGGCTTTGTGCCGATCATATTTACCC
* * *
44583908 ATGACTCTGTGTCGATCATATTTACCC
1 ATGGCTTTGTGCCGATCATATTTACCC
*
44583935 ATGGCTTTGTGCCGATTATATT
1 ATGGCTTTGTGCCGATCATATT
44583957 ACCATCGCTG
Statistics
Matches: 57, Mismatches: 19, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.20, C:0.18, G:0.18, T:0.43
Consensus pattern (27 bp):
ATGGCTTTGTGCCGATCATATTTACCC
Found at i:44587630 original size:9 final size:9
Alignment explanation
Indices: 44587616--44587672 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
44587606 ACATCATGTG
44587616 CATATCATA
1 CATATCATA
*
44587625 CATATCATGTG
1 CATATCA--TA
*
44587636 CATATCGTA
1 CATATCATA
*
44587645 CATATCATGTG
1 CATATCA--TA
44587656 CATATCATA
1 CATATCATA
44587665 CATATCAT
1 CATATCAT
44587673 GTGCATATCA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:44587639 original size:11 final size:11
Alignment explanation
Indices: 44587608--44587683 Score: 83
Period size: 11 Copynumber: 7.5 Consensus size: 11
44587598 TTATGAATAC
44587608 ATCATGTGCAT
1 ATCATGTGCAT
*
44587619 ATCA--TACAT
1 ATCATGTGCAT
44587628 ATCATGTGCAT
1 ATCATGTGCAT
*
44587639 ATC--GTACAT
1 ATCATGTGCAT
44587648 ATCATGTGCAT
1 ATCATGTGCAT
*
44587659 ATCA--TACAT
1 ATCATGTGCAT
44587668 ATCATGTGCAT
1 ATCATGTGCAT
44587679 ATCAT
1 ATCAT
44587684 ATTAATCATG
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
9 24 0.45
11 29 0.55
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:44587694 original size:20 final size:20
Alignment explanation
Indices: 44587608--44587684 Score: 145
Period size: 20 Copynumber: 3.9 Consensus size: 20
44587598 TTATGAATAC
44587608 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
44587628 ATCATGTGCATATCGTACAT
1 ATCATGTGCATATCATACAT
44587648 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
44587668 ATCATGTGCATATCATA
1 ATCATGTGCATATCATA
44587685 TTAATCATGT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 55 1.00
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.35
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:44595885 original size:125 final size:123
Alignment explanation
Indices: 44595650--44595885 Score: 323
Period size: 125 Copynumber: 1.9 Consensus size: 123
44595640 GAATTATGTG
* * * *
44595650 AAATGAAATATGGATGTGTAATGATTATTGATTTATGTGTATATGAGTATTTGAATGATACCCGG
1 AAATGAAACATGGATGTGTAATGATTATTGATGTATGTGTATATGAGCAATTGAATGATACCCGG
* * * * *
44595715 GCTAAGTCCCGAAGGCGATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGACGATTATGCTAGTAATATATCTGTGGTTGAGCCTTAGTAACGA
* *
44595773 AAATGAAACATGGATGTGTAATGATTATTGATGTATGTGTGTGCATGAGCAATTGAATGATATCC
1 AAATGAAACATGGATGTGTAATGATTATTGATGTATGTGTAT--ATGAGCAATTGAATGATACCC
44595838 GGGCTAAGTCCCGAAGAC-ATTTATGCTAGTAATTATATCTG-GGTTGAG
64 GGGCTAAGTCCCGAAGACGA-TTATGCTAGTAA-TATATCTGTGGTTGAG
44595886 ACTCGAAGGC
Statistics
Matches: 98, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
123 39 0.40
124 1 0.01
125 52 0.53
126 6 0.06
ACGTcount: A:0.30, C:0.10, G:0.25, T:0.34
Consensus pattern (123 bp):
AAATGAAACATGGATGTGTAATGATTATTGATGTATGTGTATATGAGCAATTGAATGATACCCGG
GCTAAGTCCCGAAGACGATTATGCTAGTAATATATCTGTGGTTGAGCCTTAGTAACGA
Found at i:44595982 original size:80 final size:80
Alignment explanation
Indices: 44595889--44596039 Score: 207
Period size: 80 Copynumber: 1.9 Consensus size: 80
44595879 GGTTGAGACT
* * *
44595889 CGAAGGCAATTGTGCTAGT-G-ACTACATCCGGGCTAAGACCCGAAGGCATTCGTTCAAGTTGTT
1 CGAAGGCAATTGTGCAAGTCGTACT--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTT
44595952 AAATCCGGGCTAATACC
64 AAATCCGGGCTAATACC
* * * *
44595969 CGAAGGCATTTGTGCAAGTCGTTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTAT
1 CGAAGGCAATTGTGCAAGTCGTACTATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAA
44596034 ATCCGG
66 ATCCGG
44596040 TTGTATTCCG
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
80 59 0.95
81 1 0.02
82 2 0.03
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
CGAAGGCAATTGTGCAAGTCGTACTATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAA
ATCCGGGCTAATACC
Found at i:44596037 original size:40 final size:40
Alignment explanation
Indices: 44595832--44596039 Score: 186
Period size: 40 Copynumber: 5.2 Consensus size: 40
44595822 CAATTGAATG
* * ** * **
44595832 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
* * * * * *
44595872 ATATCTGGGTTGAGACTCGAAGGCAATT-GTGCTAGT-GACT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTCG-TT
* * *
44595912 ACATCCGGGCTAAGACCCGAAGGCATTCGTTCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
* * *
44595952 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
* * *
44595992 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
44596032 ATATCCGG
1 ATATCCGG
44596040 TTGTATTCCG
Statistics
Matches: 135, Mismatches: 29, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
39 3 0.02
40 128 0.95
41 4 0.03
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
Found at i:44598401 original size:3 final size:3
Alignment explanation
Indices: 44598393--44598444 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
44598383 AGATATTTAC
44598393 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
44598441 TTA T
1 TTA T
44598445 CATCATCATC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:44601263 original size:755 final size:755
Alignment explanation
Indices: 44599813--44601326 Score: 3028
Period size: 755 Copynumber: 2.0 Consensus size: 755
44599803 ATTGAAGGCA
44599813 TCAAACCAAGGTTCATGAATTATTCACATTTCAAATGTGAATTGGATATTTATATGTGATTGAGA
1 TCAAACCAAGGTTCATGAATTATTCACATTTCAAATGTGAATTGGATATTTATATGTGATTGAGA
44599878 GATGAACCAAAGGTTCATGAATAGTTGGTAATCTTATTGATGAGATATTGATTCAAATAATGAAA
66 GATGAACCAAAGGTTCATGAATAGTTGGTAATCTTATTGATGAGATATTGATTCAAATAATGAAA
44599943 ATGATACAATGGAAATATGATAACTAGGTACGAATTATATGTATGATTTGTTAATTATCTATGCA
131 ATGATACAATGGAAATATGATAACTAGGTACGAATTATATGTATGATTTGTTAATTATCTATGCA
44600008 TGTTTATGATATTTTATATTTTCTAAAATTTGAATTATGGTAATGTCACTGAGTATTTCCAATGC
196 TGTTTATGATATTTTATATTTTCTAAAATTTGAATTATGGTAATGTCACTGAGTATTTCCAATGC
44600073 TAAGCGCACGGTTTGTTTCTGTCCGCGGGCTAGGTAAAGTTAAAGTTCAGTTCAGCATCCGAGTA
261 TAAGCGCACGGTTTGTTTCTGTCCGCGGGCTAGGTAAAGTTAAAGTTCAGTTCAGCATCCGAGTA
44600138 AATCCCGACCTTAGCTTAATTTCTAGTGATGAATCTATCTTTTGGAAATGTGGCATGTATTAGGT
326 AATCCCGACCTTAGCTTAATTTCTAGTGATGAATCTATCTTTTGGAAATGTGGCATGTATTAGGT
44600203 TTTGTTTTAGTCACTTAAATATATTTTATGTTTTGGATGTAAGGTAATTTGTAATTTTTAAGAAC
391 TTTGTTTTAGTCACTTAAATATATTTTATGTTTTGGATGTAAGGTAATTTGTAATTTTTAAGAAC
44600268 TATTTGAAATGAATAAATGAATGTTATTTGATCAAAATTTATAAGTCAATGTTTTGGGCATGAAT
456 TATTTGAAATGAATAAATGAATGTTATTTGATCAAAATTTATAAGTCAATGTTTTGGGCATGAAT
44600333 TTGGTGTGTTTAATATGTGAAAATAGCTTAAAATGGTGAAAAATCAACTTTACACACGACCAAGT
521 TTGGTGTGTTTAATATGTGAAAATAGCTTAAAATGGTGAAAAATCAACTTTACACACGACCAAGT
44600398 CACATGGGCGTGTGCCCAAGCCGTGTGGCAAAGTTAGAATTGCCCACAGGTTAGTCCCAAGGCCG
586 CACATGGGCGTGTGCCCAAGCCGTGTGGCAAAGTTAGAATTGCCCACAGGTTAGTCCCAAGGCCG
44600463 TGTGAGCAAGTCAGATCTGCCCACGGGCTGGCCCCACGGCCATGGGAGCCCCACGGGCAGGCCAC
651 TGTGAGCAAGTCAGATCTGCCCACGGGCTGGCCCCACGGCCATGGGAGCCCCACGGGCAGGCCAC
44600528 ACGGGCATGTCCCAGGCCATACGGGCGTGTGCCCCTATTC
716 ACGGGCATGTCCCAGGCCATACGGGCGTGTGCCCCTATTC
44600568 TCAAACCAAGGTTCATGAATTATTCACATTTCAAATGTGAATTGGATATTTATATGTGATTGAGA
1 TCAAACCAAGGTTCATGAATTATTCACATTTCAAATGTGAATTGGATATTTATATGTGATTGAGA
44600633 GATGAACCAAAGGTTCATGAATAGTTGGTAATCTTATTGATGAGATATTGATTCAAATAATGAAA
66 GATGAACCAAAGGTTCATGAATAGTTGGTAATCTTATTGATGAGATATTGATTCAAATAATGAAA
44600698 ATGATACAATGGAAATATGATAACTAGGTACGAATTATATGTATGATTTGTTAATTATCTATGCA
131 ATGATACAATGGAAATATGATAACTAGGTACGAATTATATGTATGATTTGTTAATTATCTATGCA
44600763 TGTTTATGATATTTTATATTTTCTAAAATTTGAATTATGGTAATGTCACTGAGTATTTCCAATGC
196 TGTTTATGATATTTTATATTTTCTAAAATTTGAATTATGGTAATGTCACTGAGTATTTCCAATGC
44600828 TAAGCGCACGGTTTGTTTCTGTCCGCGGGCTAGGTAAAGTTAAAGTTCAGTTCAGCATCCGAGTA
261 TAAGCGCACGGTTTGTTTCTGTCCGCGGGCTAGGTAAAGTTAAAGTTCAGTTCAGCATCCGAGTA
44600893 AATCCCGACCTTAGCTTAATTTCTAGTGATGAATCTATCTTTTGGAAATGTGGCATGTATTAGGT
326 AATCCCGACCTTAGCTTAATTTCTAGTGATGAATCTATCTTTTGGAAATGTGGCATGTATTAGGT
44600958 TTTGTTTTAGTCACTTAAATATATTTTATGTTTTGGATGTAAGGTAATTTGTAATTTTTAAGAAC
391 TTTGTTTTAGTCACTTAAATATATTTTATGTTTTGGATGTAAGGTAATTTGTAATTTTTAAGAAC
44601023 TATTTGAAATGAATAAATGAATGTTATTTGATCAAAATTTATAAGTCAATGTTTTGGGCATGAAT
456 TATTTGAAATGAATAAATGAATGTTATTTGATCAAAATTTATAAGTCAATGTTTTGGGCATGAAT
44601088 TTGGTGTGTTTAATATGTGAAAATAGCTTAAAATGGTGAAAAATCAACTTTACACACGACCAAGT
521 TTGGTGTGTTTAATATGTGAAAATAGCTTAAAATGGTGAAAAATCAACTTTACACACGACCAAGT
44601153 CACATGGGCGTGTGCCCAAGCCGTGTGGCAAAGTTAGAATTGCCCACAGGTTAGTCCCAAGGCCG
586 CACATGGGCGTGTGCCCAAGCCGTGTGGCAAAGTTAGAATTGCCCACAGGTTAGTCCCAAGGCCG
44601218 TGTGAGCAAGTCAGATCTGCCCACGGGCTGGCCCCACGGCCATGGGAGCCCCACGGGCAGGCCAC
651 TGTGAGCAAGTCAGATCTGCCCACGGGCTGGCCCCACGGCCATGGGAGCCCCACGGGCAGGCCAC
44601283 ACGGGCATGTCCCAGGCCATACGGGCGTGTGCCCCTATTC
716 ACGGGCATGTCCCAGGCCATACGGGCGTGTGCCCCTATTC
44601323 TCAA
1 TCAA
44601327 GGAAAAGTTT
Statistics
Matches: 759, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
755 759 1.00
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.33
Consensus pattern (755 bp):
TCAAACCAAGGTTCATGAATTATTCACATTTCAAATGTGAATTGGATATTTATATGTGATTGAGA
GATGAACCAAAGGTTCATGAATAGTTGGTAATCTTATTGATGAGATATTGATTCAAATAATGAAA
ATGATACAATGGAAATATGATAACTAGGTACGAATTATATGTATGATTTGTTAATTATCTATGCA
TGTTTATGATATTTTATATTTTCTAAAATTTGAATTATGGTAATGTCACTGAGTATTTCCAATGC
TAAGCGCACGGTTTGTTTCTGTCCGCGGGCTAGGTAAAGTTAAAGTTCAGTTCAGCATCCGAGTA
AATCCCGACCTTAGCTTAATTTCTAGTGATGAATCTATCTTTTGGAAATGTGGCATGTATTAGGT
TTTGTTTTAGTCACTTAAATATATTTTATGTTTTGGATGTAAGGTAATTTGTAATTTTTAAGAAC
TATTTGAAATGAATAAATGAATGTTATTTGATCAAAATTTATAAGTCAATGTTTTGGGCATGAAT
TTGGTGTGTTTAATATGTGAAAATAGCTTAAAATGGTGAAAAATCAACTTTACACACGACCAAGT
CACATGGGCGTGTGCCCAAGCCGTGTGGCAAAGTTAGAATTGCCCACAGGTTAGTCCCAAGGCCG
TGTGAGCAAGTCAGATCTGCCCACGGGCTGGCCCCACGGCCATGGGAGCCCCACGGGCAGGCCAC
ACGGGCATGTCCCAGGCCATACGGGCGTGTGCCCCTATTC
Found at i:44603088 original size:28 final size:27
Alignment explanation
Indices: 44603042--44603156 Score: 83
Period size: 28 Copynumber: 4.1 Consensus size: 27
44603032 CACATACCTA
*
44603042 TATATGGCCCACTTAGCCCAATCTC-TT
1 TATATGGCCCA-TTAGCCCAATCACATT
*
44603069 TCATATGGCCCATTAGGCCCATTCACATT
1 T-ATATGGCCCATTA-GCCCAATCACATT
* **
44603098 TATGTGGCCCATTAAGTCTAAATCACATT
1 TATATGGCCCATT-AG-CCCAATCACATT
*
44603127 CT-TATGG-CCACTAGGCCCAAATCACATT
1 -TATATGGCCCATTA-GCCC-AATCACATT
44603155 TA
1 TA
44603157 CAGTCATGCT
Statistics
Matches: 69, Mismatches: 10, Indels: 17
0.72 0.10 0.18
Matches are distributed among these distances:
27 7 0.10
28 44 0.64
29 17 0.25
30 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.13, T:0.31
Consensus pattern (27 bp):
TATATGGCCCATTAGCCCAATCACATT
Found at i:44609453 original size:3 final size:3
Alignment explanation
Indices: 44609445--44609541 Score: 164
Period size: 3 Copynumber: 33.0 Consensus size: 3
44609435 AGATATTTAC
44609445 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
44609493 TTA TTA TTA TTA -TA TTA TTA TTA TTA TTA TTA TTA -TA TT- TTA TCTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
44609539 TTA
1 TTA
44609542 ATTGAGATAA
Statistics
Matches: 90, Mismatches: 0, Indels: 8
0.92 0.00 0.08
Matches are distributed among these distances:
2 6 0.07
3 81 0.90
4 3 0.03
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:44609699 original size:17 final size:17
Alignment explanation
Indices: 44609674--44609708 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
44609664 TGAAAGAAAT
* *
44609674 AAAATAAAACAAAAAGA
1 AAAAGAAAAAAAAAAGA
44609691 AAAAGAAAAAAAAAAGA
1 AAAAGAAAAAAAAAAGA
44609708 A
1 A
44609709 GGTGCAGAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.86, C:0.03, G:0.09, T:0.03
Consensus pattern (17 bp):
AAAAGAAAAAAAAAAGA
Found at i:44616334 original size:46 final size:46
Alignment explanation
Indices: 44616171--44616343 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
44616161 ATTTGGGCAT
*
44616171 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-A-GT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
44616215 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
44616260 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
44616308 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
44616344 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:44619313 original size:15 final size:15
Alignment explanation
Indices: 44619293--44619372 Score: 90
Period size: 15 Copynumber: 5.4 Consensus size: 15
44619283 GTATCTTGGG
44619293 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
44619308 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
44619323 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
44619338 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
*
44619353 TTTCTTTATCC-GGT
1 TTTCTTTATCCTGGA
44619367 TTTCTT
1 TTTCTT
44619373 GTTATCTTTG
Statistics
Matches: 54, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
14 8 0.15
15 46 0.85
ACGTcount: A:0.10, C:0.19, G:0.14, T:0.57
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:44619329 original size:30 final size:30
Alignment explanation
Indices: 44619284--44619363 Score: 99
Period size: 30 Copynumber: 2.7 Consensus size: 30
44619274 CATAGTATCG
* *
44619284 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATCCTGGATCTCTC
* * *
44619314 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATCCTGGATCTCTC
44619344 TATCTTGGATTTCTTTATCC
1 TATCTTGGATTTCTTTATCC
44619364 GGTTTTCTTG
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
29 1 0.02
30 40 0.95
31 1 0.02
ACGTcount: A:0.11, C:0.19, G:0.15, T:0.55
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATCCTGGATCTCTC
Found at i:44621718 original size:46 final size:46
Alignment explanation
Indices: 44621665--44621840 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
44621655 TATTTGGGCA
44621665 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
44621711 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
44621756 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
44621804 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
44621841 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:44621820 original size:93 final size:93
Alignment explanation
Indices: 44621661--44621832 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
44621651 GGGATATTTG
* *
44621661 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
44621726 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
44621754 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
44621819 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
44621833 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:44630129 original size:46 final size:46
Alignment explanation
Indices: 44630079--44630254 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
44630069 TGGTTGAGCA
44630079 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
44630125 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
44630170 CATCCGAACTCGTTGAATTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
44630218 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
44630255 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.57
47 28 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:44630235 original size:93 final size:93
Alignment explanation
Indices: 44630076--44630247 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
44630066 GGATGGTTGA
* * *
44630076 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAATTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
44630141 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
44630169 GCATCCGAACTCGTTGAATTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAATTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
44630234 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
44630248 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAATTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:44642590 original size:24 final size:24
Alignment explanation
Indices: 44642556--44642650 Score: 120
Period size: 24 Copynumber: 3.9 Consensus size: 24
44642546 AGCTTATTGC
*
44642556 TCAGCTAAATAGAGCTTACCGTTT
1 TCAGCTCAATAGAGCTTACCGTTT
44642580 TCAGCTCAATAGAGCTTACCGTTT
1 TCAGCTCAATAGAGCTTACCGTTT
* * *
44642604 TCTGATCAATAGAGCTTACTGTTT
1 TCAGCTCAATAGAGCTTACCGTTT
44642628 ATCAGCTCAGA-AGGAGCTTACCG
1 -TCAGCTCA-ATA-GAGCTTACCG
44642651 ACCAAGACTC
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
24 44 0.72
25 7 0.11
26 10 0.16
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (24 bp):
TCAGCTCAATAGAGCTTACCGTTT
Found at i:44649359 original size:48 final size:48
Alignment explanation
Indices: 44649296--44649745 Score: 659
Period size: 48 Copynumber: 9.6 Consensus size: 48
44649286 TGAAAGTGTA
44649296 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
*
44649344 TATGTGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
*
44649392 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATACG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
44649440 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
* *
44649488 TATATGTGGTATAG-C------C--AT-TCAAATACATGTGTGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
44649526 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
* * * *
44649574 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATGTG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
* * * *
44649622 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATGTG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
* * * * * *
44649670 TATATGTTGTAAAGCCGAATGGCGAATGTGAAATGCGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
*
44649718 AATATGTGGTAAAGCCGAATGGCTAATG
1 TATATGTGGTAAAGCCGAATGGCTAATG
44649746 AGAATGTTGT
Statistics
Matches: 371, Mismatches: 21, Indels: 20
0.90 0.05 0.05
Matches are distributed among these distances:
38 32 0.09
39 3 0.01
41 1 0.00
45 1 0.00
47 3 0.01
48 331 0.89
ACGTcount: A:0.34, C:0.08, G:0.27, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
Found at i:44649589 original size:182 final size:182
Alignment explanation
Indices: 44649326--44649685 Score: 612
Period size: 182 Copynumber: 2.0 Consensus size: 182
44649316 GGCTAATGTG
*
44649326 AAATACATGTGTGATATGTATGTGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATAT
1 AAATACATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATAT
* *
44649391 GTATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATACGTATATGTGGTAAAGCC
66 GTATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATATGAGATACGTATATGTGGTAAAGCC
* * *
44649456 GAATGGCTAATGTGAAATACATGTGTGATATGTATATGTGGTATAGCCATTC
131 GAATGGCTAATGTGAAATACATATGAGATATGTATATGTGGTAAAGCCATTC
44649508 AAATACATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATAT
1 AAATACATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATAT
* **
44649573 GTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATGTGTATATGTGGTAAAGCC
66 GTATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATATGAGATACGTATATGTGGTAAAGCC
* * *
44649638 GAATGGCTAATGTGAAATATATATGAGATGTGTATATGTTGTAAAGCC
131 GAATGGCTAATGTGAAATACATATGAGATATGTATATGTGGTAAAGCC
44649686 GAATGGCGAA
Statistics
Matches: 166, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
182 166 1.00
ACGTcount: A:0.34, C:0.08, G:0.26, T:0.32
Consensus pattern (182 bp):
AAATACATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATAT
GTATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATATGAGATACGTATATGTGGTAAAGCC
GAATGGCTAATGTGAAATACATATGAGATATGTATATGTGGTAAAGCCATTC
Found at i:44649700 original size:230 final size:230
Alignment explanation
Indices: 44649296--44649733 Score: 714
Period size: 230 Copynumber: 1.9 Consensus size: 230
44649286 TGAAAGTGTA
*
44649296 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTATGTGTGGTAAAGCCG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTATATGTGGTAAAGCCG
* *
44649361 AATGGCTAATGTGAAATACATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
66 AATGGCTAATGTGAAATACATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* * * * * *
44649426 ACATGTGTGATACGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTAT
131 ACATATGAGATACGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATACATATGAGATATGAAT
*
44649491 ATGTGGTATAGCCATTCAAATACATGTGTGATATG
196 ATGTGGTAAAGCCATTCAAATACATGTGTGATATG
44649526 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTATATGTGGTAAAGCCG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTATATGTGGTAAAGCCG
* *
44649591 AATGGCTAATGTGAAATATATATGAGATGTGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
66 AATGGCTAATGTGAAATACATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* ** * * *
44649656 ATATATGAGATGTGTATATGTTGTAAAGCCGAATGGCGAATGTGAAATGCGTATGAGATATGAAT
131 ACATATGAGATACGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATACATATGAGATATGAAT
44649721 ATGTGGTAAAGCC
196 ATGTGGTAAAGCC
44649734 GAATGGCTAA
Statistics
Matches: 190, Mismatches: 18, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
230 190 1.00
ACGTcount: A:0.34, C:0.08, G:0.27, T:0.31
Consensus pattern (230 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTATATGTGGTAAAGCCG
AATGGCTAATGTGAAATACATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
ACATATGAGATACGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATACATATGAGATATGAAT
ATGTGGTAAAGCCATTCAAATACATGTGTGATATG
Found at i:44649844 original size:37 final size:37
Alignment explanation
Indices: 44649794--44649916 Score: 228
Period size: 37 Copynumber: 3.3 Consensus size: 37
44649784 GGAAATATAT
* *
44649794 TCCGGGTGAGACCCGATGACTACGTGTGGAGATCATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
44649831 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
44649868 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
44649905 TCCGGGTAAGAC
1 TCCGGGTAAGAC
44649917 TTCGTAATAA
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 84 1.00
ACGTcount: A:0.24, C:0.20, G:0.33, T:0.23
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:44655632 original size:29 final size:29
Alignment explanation
Indices: 44655599--44655758 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
44655589 GTGACGAGAT
44655599 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
44655628 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
44655657 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
44655686 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
44655715 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
44655744 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
44655759 GAAATCGAGT
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:44663864 original size:27 final size:29
Alignment explanation
Indices: 44663765--44663850 Score: 172
Period size: 29 Copynumber: 3.0 Consensus size: 29
44663755 GTGACGAGAT
44663765 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
44663794 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
44663823 TGGCACTAAGTGTGCATGCTGGAAATAT
1 TGGCACTAAGTGTGCATGCTGGAAATAT
44663851 GGCACTGGGT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 57 1.00
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:44663881 original size:56 final size:58
Alignment explanation
Indices: 44663761--44663922 Score: 172
Period size: 56 Copynumber: 2.8 Consensus size: 58
44663751 TACGGTGACG
*
44663761 AGAT-TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAA
1 AGATATGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTCGAA
* **
44663818 ATATATGGCACTAAGTGTGCATGCTGG-AA-ATATGGCACTGGGTGTGCGA-GCTCGAA
1 AGATATGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGC-ATGCTCGAA
* * * ** * *
44663874 GGGTATGGCACTATGTGTGCGGGCT-TAAATCACATGGCACTAAGTGTGC
1 AGATATGGCACTAAGTGTGCATGCTGGAAAT-ATATGGCACTAAGTGTGC
44663923 GAAATCGAGT
Statistics
Matches: 86, Mismatches: 14, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
56 43 0.50
57 6 0.07
58 37 0.43
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (58 bp):
AGATATGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTCGAA
Found at i:44675587 original size:11 final size:10
Alignment explanation
Indices: 44675553--44675601 Score: 62
Period size: 10 Copynumber: 4.8 Consensus size: 10
44675543 CTCACTTGAA
44675553 CTCGTTTCAG
1 CTCGTTTCAG
*
44675563 CTCGTTTGAG
1 CTCGTTTCAG
*
44675573 CTCGATTTTAG
1 CTCG-TTTCAG
44675584 CTCGTTTCAG
1 CTCGTTTCAG
*
44675594 CTCATTTC
1 CTCGTTTC
44675602 TTTTCTTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
10 25 0.74
11 9 0.26
ACGTcount: A:0.12, C:0.27, G:0.18, T:0.43
Consensus pattern (10 bp):
CTCGTTTCAG
Found at i:44675587 original size:21 final size:21
Alignment explanation
Indices: 44675539--44675601 Score: 67
Period size: 20 Copynumber: 3.1 Consensus size: 21
44675529 TCAGCTCCAA
** *
44675539 TCAGCTCACTTGAACTCG-TT
1 TCAGCTCGTTTGAGCTCGATT
44675559 TCAGCTCGTTTGAGCTCGATT
1 TCAGCTCGTTTGAGCTCGATT
* *
44675580 TTAGCTCGTTTCAGCTC-ATT
1 TCAGCTCGTTTGAGCTCGATT
44675600 TC
1 TC
44675602 TTTTCTTTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
20 19 0.53
21 17 0.47
ACGTcount: A:0.16, C:0.27, G:0.17, T:0.40
Consensus pattern (21 bp):
TCAGCTCGTTTGAGCTCGATT
Found at i:44680689 original size:26 final size:26
Alignment explanation
Indices: 44680660--44680709 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
44680650 ATATTTTTAA
*
44680660 TATTTATATTATAAT-AATTATATATT
1 TATTTATA-TAAAATAAATTATATATT
*
44680686 TATTTTTATAAAATAAATTATATA
1 TATTTATATAAAATAAATTATATA
44680710 AATGTAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 5 0.24
26 16 0.76
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (26 bp):
TATTTATATAAAATAAATTATATATT
Found at i:44681246 original size:3 final size:3
Alignment explanation
Indices: 44681238--44681302 Score: 112
Period size: 3 Copynumber: 21.7 Consensus size: 3
44681228 TTTTTAAGTG
* *
44681238 CCT CCT CCT CTT CCT CCT CCT CCT CTT CCT CCT CCT CCT CCT CCT CCT
1 CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT
44681286 CCT CCT CCT CCT CCT CC
1 CCT CCT CCT CCT CCT CC
44681303 ACTTAAAAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.00, C:0.65, G:0.00, T:0.35
Consensus pattern (3 bp):
CCT
Found at i:44683464 original size:14 final size:15
Alignment explanation
Indices: 44683445--44683482 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
44683435 TTAAAGTTTT
44683445 TTTAAAAAAT-GGTA
1 TTTAAAAAATCGGTA
* *
44683459 TTTAAAATATCGTTA
1 TTTAAAAAATCGGTA
44683474 TTTAAAAAA
1 TTTAAAAAA
44683483 AAATTAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 9 0.45
15 11 0.55
ACGTcount: A:0.50, C:0.03, G:0.08, T:0.39
Consensus pattern (15 bp):
TTTAAAAAATCGGTA
Found at i:44684801 original size:14 final size:13
Alignment explanation
Indices: 44684783--44684842 Score: 50
Period size: 14 Copynumber: 4.3 Consensus size: 13
44684773 TTAAATTTAA
44684783 TATTTATAATTAT
1 TATTTATAATTAT
44684796 TCATTTAATAATTAATT
1 T-ATTT-ATAATT-A-T
* *
44684813 TATATATATTTAT
1 TATTTATAATTAT
44684826 GTATTTAT-ATTAT
1 -TATTTATAATTAT
44684839 TATT
1 TATT
44684843 GAAATTTTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 11
0.72 0.08 0.21
Matches are distributed among these distances:
12 4 0.11
13 6 0.16
14 11 0.29
15 11 0.29
16 4 0.11
17 2 0.05
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (13 bp):
TATTTATAATTAT
Found at i:44691829 original size:40 final size:40
Alignment explanation
Indices: 44691637--44691822 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
44691627 TCGAATGATG
* * * *
44691637 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
44691677 TCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
44691717 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
44691757 TCCGGGTTAAGTCCCGAAGGCATCTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
44691798 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
44691823 AACGAGTAGC
Statistics
Matches: 129, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 119 0.92
41 9 0.07
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:44691829 original size:80 final size:79
Alignment explanation
Indices: 44691690--44691845 Score: 194
Period size: 80 Copynumber: 2.0 Consensus size: 79
44691680 GGACTAAGAT
**
44691690 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAG-TAGCT
44691754 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAGTC
* *
44691770 CCGAAGGCA-TCTGTGCGAGTTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTGAACGAGTAG
1 CCGAAGGCATTC-GTGCGAGTTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGTAG
*
44691832 CTATATCCGGTTAA
63 CTAAATCCGGTTAA
44691846 ACTCCGAAGG
Statistics
Matches: 67, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
79 11 0.16
80 54 0.81
81 2 0.03
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTCGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAGTC
Found at i:44693507 original size:35 final size:35
Alignment explanation
Indices: 44693456--44693599 Score: 130
Period size: 35 Copynumber: 4.1 Consensus size: 35
44693446 AAGCCCGACC
*
44693456 TTTAGAAAAGGTTGGGATAGACCCGTCTAATGCAAT
1 TTTA-AAAAGGTTGGGATAGACCCGTCTAAGGCAAT
* * * * ** *
44693492 TTTAAAAAGGCTGGGAAAGATCTGTCTAAGATAACC
1 TTTAAAAAGGTTGGGATAGACCCGTCTAAGGCAA-T
*
44693528 TTT-AAAAGGTTGGGATAGACCCATCTAAGGC-AT
1 TTTAAAAAGGTTGGGATAGACCCGTCTAAGGCAAT
* * * *
44693561 CCTTAGAAAGGTTGGGATAGACACGTCTAAGGTAAT
1 -TTTAAAAAGGTTGGGATAGACCCGTCTAAGGCAAT
44693597 TTT
1 TTT
44693600 TTCTATTTTT
Statistics
Matches: 82, Mismatches: 22, Indels: 9
0.73 0.19 0.08
Matches are distributed among these distances:
34 3 0.04
35 70 0.85
36 9 0.11
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (35 bp):
TTTAAAAAGGTTGGGATAGACCCGTCTAAGGCAAT
Found at i:44693589 original size:70 final size:70
Alignment explanation
Indices: 44693461--44693591 Score: 167
Period size: 70 Copynumber: 1.9 Consensus size: 70
44693451 CGACCTTTAG
* * * *
44693461 AAAAGGTTGGGATAGACCCGTCTAATGCAATTTTAAAAAGGCTGGGAAAGATCTGTCTAAGATAA
1 AAAAGGTTGGGATAGACCCATCTAAGGCAATCTTAAAAAGGCTGGGAAAGATCCGTCTAAGATAA
44693526 CCTTT
66 CCTTT
* * *
44693531 AAAAGGTTGGGATAGACCCATCTAAGGC-ATCCTTAGAAAGGTTGGGATAGA-CACGTCTAAG
1 AAAAGGTTGGGATAGACCCATCTAAGGCAAT-CTTAAAAAGGCTGGGAAAGATC-CGTCTAAG
44693592 GTAATTTTTT
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
69 3 0.06
70 49 0.94
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.24
Consensus pattern (70 bp):
AAAAGGTTGGGATAGACCCATCTAAGGCAATCTTAAAAAGGCTGGGAAAGATCCGTCTAAGATAA
CCTTT
Found at i:44697308 original size:85 final size:85
Alignment explanation
Indices: 44697202--44697395 Score: 226
Period size: 85 Copynumber: 2.3 Consensus size: 85
44697192 TCGATGCCTC
* * * * * * *
44697202 TGTCCCAGATAGGGTCTTACACGAAATTAGATACGATACCGATGTCCCAGACATGGTTTTATACA
1 TGTCCCAGACACGGTCTTACACGAAATCAAATACAATACCGATGCCCCAGACATGGTCTTATACA
* * **
44697267 TTAATCTCAAACGAGGCTTG
66 TAAATCTCAAACAAGGCCCG
* * * ** *
44697287 TGTGCCAGACATGGTCTTACACGGAATCAAATACAATGTCGATGCCCCAGACATGGTCTTATACG
1 TGTCCCAGACACGGTCTTACACGAAATCAAATACAATACCGATGCCCCAGACATGGTCTTATACA
*
44697352 TAAATCTCAATCAAGGCCCG
66 TAAATCTCAAACAAGGCCCG
44697372 TGTCCCAGACACGGTCTTACACGA
1 TGTCCCAGACACGGTCTTACACGA
44697396 TATCTTAAAC
Statistics
Matches: 89, Mismatches: 20, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
85 89 1.00
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (85 bp):
TGTCCCAGACACGGTCTTACACGAAATCAAATACAATACCGATGCCCCAGACATGGTCTTATACA
TAAATCTCAAACAAGGCCCG
Found at i:44701828 original size:40 final size:40
Alignment explanation
Indices: 44701776--44701960 Score: 255
Period size: 40 Copynumber: 4.7 Consensus size: 40
44701766 GCCACTAGCT
* * ** *
44701776 CAAATGCCTTCGGGACTTAGCCCAGTTATGGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
44701816 CAAATGCCTTCGGGACTTAGCCCGG-TATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
* *
44701855 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
* * *
44701895 CAAACGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
* *
44701935 CGAATGCCTTCAGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
44701961 ATTAGCCACT
Statistics
Matches: 132, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
39 36 0.27
40 96 0.73
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
Found at i:44701874 original size:79 final size:80
Alignment explanation
Indices: 44701776--44701957 Score: 258
Period size: 79 Copynumber: 2.3 Consensus size: 80
44701766 GCCACTAGCT
* ** * *
44701776 CAAATGCCTTCGGGACTTAGCCCAGTTATGGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCAGATATAATAACTAGCACAAACGCCTTCGGGACTTAGCCCGG
44701841 -TATAATAACTCGCA
66 ATATAATAACTCGCA
* *
44701855 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTAGCACAAACGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCAGATATAATAACTAGCACAAACGCCTTCGGGACTTAGCCCGG
* *
44701920 ATATAGTAGCTCGCA
66 ATATAATAACTCGCA
* *
44701935 CGAATGCCTTCAGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
44701958 GGAATTAGCC
Statistics
Matches: 91, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
79 58 0.64
80 33 0.36
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCAGATATAATAACTAGCACAAACGCCTTCGGGACTTAGCCCGG
ATATAATAACTCGCA
Found at i:44701973 original size:80 final size:78
Alignment explanation
Indices: 44701776--44701997 Score: 252
Period size: 79 Copynumber: 2.8 Consensus size: 78
44701766 GCCACTAGCT
* * * * * *
44701776 CAAATGCCTTCGGGACTTAGCCCAGTTATGGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCAGGACTTAGCCCGGATAT-ATAGCTAGCACAAATGCCTTCGGGACTTAGCCCGG
44701841 TATAATAACTCGCA
65 TATAATAACTCGCA
* *
44701855 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTAGCACAAACGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCAGGACTTAGCCCGGATAT-ATAGCTAGCACAAATGCCTTCGGGACTTAGCCCGG
* *
44701920 ATATAGTAGCTCGCA
65 -TATAATAACTCGCA
* *
44701935 CGAATGCCTTCAGGACTTAGCCCGGA-AT-TAGCCACTAGCTCAAATG-CTCTCGGGACTTAGCC
1 CAAATGCCTTCAGGACTTAGCCCGGATATATAG---CTAGCACAAATGCCT-TCGGGACTTAGCC
44701997 C
62 C
44701998 AGTTATCATC
Statistics
Matches: 125, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
77 3 0.02
79 62 0.50
80 60 0.48
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (78 bp):
CAAATGCCTTCAGGACTTAGCCCGGATATATAGCTAGCACAAATGCCTTCGGGACTTAGCCCGGT
ATAATAACTCGCA
Done.