Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007952.1 Hibiscus syriacus cultivar Beakdansim tig00110377_pilon, whole genome shotgun sequence
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: 3169409
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 13 of 16
Found at i:2469914 original size:111 final size:111
Alignment explanation
Indices: 2469720--2470058 Score: 606
Period size: 111 Copynumber: 3.1 Consensus size: 111
2469710 CTCAGATGGA
* * *
2469720 AATTATATATCTCTACACTTTTCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTAT
1 AATTAAATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTAT
* *
2469785 TAGTAATATTTAGTTGATTTATTTAATGAATGATTATTAGATTAAG
66 TAGTAATAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAG
*
2469831 AATTAAATATCTCGACACTTTGCTGATACGGTAACATTTTAATGTTTTAATTTAATTTAAATTAT
1 AATTAAATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTAT
*
2469896 TAGTAATAATTAGTTGATTTATTTAATGCATGACTATTAGATTAAG
66 TAGTAATAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAG
2469942 AATTAAATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTAT
1 AATTAAATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTAT
*
2470007 TAGTAATAATTAGTTGATTTATTTAATGCATGATTATTAGAGTAAG
66 TAGTAATAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAG
2470053 AATTAA
1 AATTAA
2470059 TTTTTGTAAT
Statistics
Matches: 218, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
111 218 1.00
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.45
Consensus pattern (111 bp):
AATTAAATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTAT
TAGTAATAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAG
Found at i:2471589 original size:18 final size:18
Alignment explanation
Indices: 2471566--2471621 Score: 94
Period size: 18 Copynumber: 3.1 Consensus size: 18
2471556 CCAGCAGCCA
2471566 CCGCAGCCATATATGATG
1 CCGCAGCCATATATGATG
*
2471584 CCGCAGCCATATATGATA
1 CCGCAGCCATATATGATG
*
2471602 CCGCAGCCATATATAATG
1 CCGCAGCCATATATGATG
2471620 CC
1 CC
2471622 ACCATCACCT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.21
Consensus pattern (18 bp):
CCGCAGCCATATATGATG
Found at i:2472094 original size:16 final size:16
Alignment explanation
Indices: 2472073--2472117 Score: 74
Period size: 15 Copynumber: 2.9 Consensus size: 16
2472063 GGTGTGCAAA
2472073 TTCGGGTACCCGGATT
1 TTCGGGTACCCGGATT
2472089 TTCGGGTACCC-GATT
1 TTCGGGTACCCGGATT
*
2472104 TCCGGGTACCCGGA
1 TTCGGGTACCCGGA
2472118 ACTTCCGGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 14 0.52
16 13 0.48
ACGTcount: A:0.13, C:0.29, G:0.31, T:0.27
Consensus pattern (16 bp):
TTCGGGTACCCGGATT
Found at i:2472185 original size:15 final size:15
Alignment explanation
Indices: 2472165--2472221 Score: 78
Period size: 15 Copynumber: 3.7 Consensus size: 15
2472155 CTGGATGTTA
2472165 CGGGTACCCGGTAAT
1 CGGGTACCCGGTAAT
**
2472180 CGGGTACCCGGATTTT
1 CGGGTACCCGG-TAAT
2472196 GCGGGTACCCGGTAAT
1 -CGGGTACCCGGTAAT
2472212 CGGGTACCCG
1 CGGGTACCCG
2472222 ATACCCGGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
15 21 0.58
16 4 0.11
17 11 0.31
ACGTcount: A:0.16, C:0.28, G:0.35, T:0.21
Consensus pattern (15 bp):
CGGGTACCCGGTAAT
Found at i:2477068 original size:17 final size:17
Alignment explanation
Indices: 2477042--2477142 Score: 71
Period size: 17 Copynumber: 5.7 Consensus size: 17
2477032 ACATAGAAAT
* *
2477042 TAAATTAATATCATAAA
1 TAAATAAATATAATAAA
2477059 TAAATAAATATAATAATA
1 TAAATAAATATAATAA-A
* *
2477077 TTAATAATTGATAATATTAA
1 TAAATAAAT-ATAATA--AA
*
2477097 -ATATTAAATATAATAAA
1 TA-AATAAATATAATAAA
*
2477114 TAATTAAAATATAAT-AA
1 TAAAT-AAATATAATAAA
*
2477131 TATATAAATATA
1 TAAATAAATATA
2477143 GTAATTAAAA
Statistics
Matches: 68, Mismatches: 9, Indels: 15
0.74 0.10 0.16
Matches are distributed among these distances:
16 7 0.10
17 24 0.35
18 18 0.26
19 12 0.18
20 6 0.09
21 1 0.01
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.38
Consensus pattern (17 bp):
TAAATAAATATAATAAA
Found at i:2477147 original size:16 final size:16
Alignment explanation
Indices: 2477057--2477185 Score: 74
Period size: 16 Copynumber: 8.9 Consensus size: 16
2477047 TAATATCATA
*
2477057 AATAAATAAATATAAT
1 AATATATAAATATAAT
*
2477073 AATAT-T-AATAATTGAT
1 AATATATAAAT-A-TAAT
2477089 AATAT-TAAATAT--T
1 AATATATAAATATAAT
2477102 AA-ATAT-AATA-AAT
1 AATATATAAATATAAT
2477115 AAT-TA-AAATATAAT
1 AATATATAAATATAAT
*
2477129 AATATATAAATATAGT
1 AATATATAAATATAAT
2477145 AAT-TA-AAATAT-AT
1 AATATATAAATATAAT
* *
2477158 ATTCTATAAA-A-AAT
1 AATATATAAATATAAT
2477172 AAT-TATAATATATA
1 AATATATAA-ATATA
2477186 TTTTATAAAT
Statistics
Matches: 90, Mismatches: 6, Indels: 34
0.69 0.05 0.26
Matches are distributed among these distances:
12 6 0.07
13 21 0.23
14 23 0.26
15 11 0.12
16 26 0.29
17 3 0.03
ACGTcount: A:0.60, C:0.01, G:0.02, T:0.38
Consensus pattern (16 bp):
AATATATAAATATAAT
Found at i:2477182 original size:27 final size:27
Alignment explanation
Indices: 2477104--2477194 Score: 101
Period size: 27 Copynumber: 3.3 Consensus size: 27
2477094 TAAATATTAA
* *
2477104 ATATAATAAATAATTAAAATATAATAAT
1 ATATAAAAAATAATTAAAATAT-ATATT
*
2477132 ATATAAATATAGTAATTAAAATATATATT
1 ATATAAA-A-AATAATTAAAATATATATT
* *
2477161 CTATAAAAAATAATTATAATATATATT
1 ATATAAAAAATAATTAAAATATATATT
*
2477188 TTATAAA
1 ATATAAA
2477195 TTTTGAAATA
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
27 23 0.43
28 7 0.13
29 11 0.20
30 13 0.24
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (27 bp):
ATATAAAAAATAATTAAAATATATATT
Found at i:2477254 original size:14 final size:14
Alignment explanation
Indices: 2477225--2477283 Score: 79
Period size: 14 Copynumber: 4.4 Consensus size: 14
2477215 ATATGTGTAA
2477225 AATATTA-AA-TAT
1 AATATTATAATTAT
*
2477237 AATA-AATAATTAAT
1 AATATTATAATT-AT
2477251 AATATTATAATTAT
1 AATATTATAATTAT
2477265 AATATTATAATTAT
1 AATATTATAATTAT
2477279 AATAT
1 AATAT
2477284 ATTTTGAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
11 1 0.02
12 6 0.15
13 1 0.02
14 27 0.66
15 6 0.15
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
AATATTATAATTAT
Found at i:2486166 original size:8 final size:8
Alignment explanation
Indices: 2486153--2486191 Score: 62
Period size: 8 Copynumber: 5.0 Consensus size: 8
2486143 CTCAAACCCT
2486153 CTCTTCTC
1 CTCTTCTC
2486161 CTCTTCTC
1 CTCTTCTC
2486169 CTCTTCTC
1 CTCTTCTC
*
2486177 C-GTTCTC
1 CTCTTCTC
2486184 CTCTTCTC
1 CTCTTCTC
2486192 TCTCCCCAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.00, C:0.49, G:0.03, T:0.49
Consensus pattern (8 bp):
CTCTTCTC
Found at i:2493694 original size:2 final size:2
Alignment explanation
Indices: 2493687--2493725 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
2493677 CATCCATAGA
2493687 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2493726 CACGCGTTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2494107 original size:14 final size:14
Alignment explanation
Indices: 2494088--2494119 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
2494078 TCTGGAGTCA
2494088 CGCGGGACATATGC
1 CGCGGGACATATGC
*
2494102 CGCGGGACATATGT
1 CGCGGGACATATGC
2494116 CGCG
1 CGCG
2494120 TTTTACCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.19, C:0.28, G:0.38, T:0.16
Consensus pattern (14 bp):
CGCGGGACATATGC
Found at i:2497048 original size:16 final size:15
Alignment explanation
Indices: 2497028--2497075 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
2497018 TATTTTTTTC
2497028 AAATAATCATAATAAA
1 AAATAAT-ATAATAAA
*
2497044 CAATAAATATAATAAA
1 AAAT-AATATAATAAA
* *
2497060 AAATATTATAACAAA
1 AAATAATATAATAAA
2497075 A
1 A
2497076 TTACCTTATA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
15 10 0.37
16 14 0.52
17 3 0.11
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (15 bp):
AAATAATATAATAAA
Found at i:2505646 original size:18 final size:17
Alignment explanation
Indices: 2505614--2505659 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 17
2505604 GAATTATATT
2505614 AGTAAAATATTAAATAA
1 AGTAAAATATTAAATAA
2505631 AGTAAAATACTTAAATAA
1 AGTAAAATA-TTAAATAA
*
2505649 ATTAAATATAT
1 AGTAAA-ATAT
2505660 AATATTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 9 0.35
18 14 0.54
19 3 0.12
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (17 bp):
AGTAAAATATTAAATAA
Found at i:2513819 original size:66 final size:67
Alignment explanation
Indices: 2513675--2513835 Score: 227
Period size: 66 Copynumber: 2.4 Consensus size: 67
2513665 CGATTAACAG
* * * *
2513675 TCAAATAATTTCGGTTCGATTAATGGTTAAAGAAAAAAATCGATTGATTTGGTTTGGTTAATAAT
1 TCAAATAATTTCGGTTCGATTAACGGTTAAAGAAAAAAATCAATTGATTTGATTCGGTTAATAAT
2513740 TT
66 TT
* *
2513742 TCAAATAAATTTCGGTTCGATTAACGGTTAAAG-AAAAAAT-AATTTATTTTATTCGGTTAATAA
1 TCAAAT-AATTTCGGTTCGATTAACGGTTAAAGAAAAAAATCAATTGATTTGATTCGGTTAATAA
2513805 TTT
65 TTT
*
2513808 TCAAATGAATTTTGGTTCGATTAACGGT
1 TCAAAT-AATTTCGGTTCGATTAACGGT
2513836 CAAATAATTT
Statistics
Matches: 85, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
66 47 0.55
67 13 0.15
68 25 0.29
ACGTcount: A:0.36, C:0.07, G:0.16, T:0.40
Consensus pattern (67 bp):
TCAAATAATTTCGGTTCGATTAACGGTTAAAGAAAAAAATCAATTGATTTGATTCGGTTAATAAT
TT
Found at i:2513840 original size:160 final size:163
Alignment explanation
Indices: 2513566--2513869 Score: 436
Period size: 160 Copynumber: 1.9 Consensus size: 163
2513556 TCAATTCGGC
* * *
2513566 TAATAATTTTCAAATAAATTTTGGTTCGATTAACGATTAAGGAAAATAATTTATTTTATTCGGTT
1 TAATAATTTTCAAATAAATTTCGGTTCGATTAACGATTAAAGAAAATAA-TTAATTTATT--GTT
*
2513631 AATTCAATTAATAATTTTTAAATAAATTTCGATTCGATTAACAGTCAAATAATTTCGGTTCGATT
63 AATTCAATTAATAATTTTCAAATAAATTTCGATTCGATTAACAGTCAAATAATTTCGGTTCGATT
2513696 AATGGTTAAAGAAAAAAATCGATTGATTTGGTTTGGT
128 AATGGTTAAA-AAAAAAATCGATTGATTTGGTTTGGT
*
2513733 TAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTTAAAGAAAA-AA-TAATTTATT-TT-AT
1 TAATAATTTTCAAATAAATTTCGGTTCGATTAACGATTAAAGAAAATAATTAATTTATTGTTAAT
** * * * * *
2513794 TCGGTTAATAATTTTCAAATGAATTTTGGTTCGATTAACGGTCAAATAATTTTGGTTCGATTAAT
66 TCAATTAATAATTTTCAAATAAATTTCGATTCGATTAACAGTCAAATAATTTCGGTTCGATTAAT
2513859 GGTTAAAAAAA
131 GGTTAAAAAAA
2513870 CTCAGTTAAT
Statistics
Matches: 125, Mismatches: 12, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
159 4 0.03
160 66 0.53
161 2 0.02
164 8 0.06
166 2 0.02
167 43 0.34
ACGTcount: A:0.38, C:0.07, G:0.14, T:0.41
Consensus pattern (163 bp):
TAATAATTTTCAAATAAATTTCGGTTCGATTAACGATTAAAGAAAATAATTAATTTATTGTTAAT
TCAATTAATAATTTTCAAATAAATTTCGATTCGATTAACAGTCAAATAATTTCGGTTCGATTAAT
GGTTAAAAAAAAAATCGATTGATTTGGTTTGGT
Found at i:2513846 original size:26 final size:26
Alignment explanation
Indices: 2513808--2513934 Score: 105
Period size: 26 Copynumber: 4.9 Consensus size: 26
2513798 TTAATAATTT
*
2513808 TCAAATGAATTTTGGTTCGATTAACGG
1 TCAAAT-AATTTCGGTTCGATTAACGG
* *
2513835 TCAAATAATTTTGGTTCGATTAATGG
1 TCAAATAATTTCGGTTCGATTAACGG
* * ** * * ***
2513861 TTAAAAAAACTCAGTT--AATAATTT
1 TCAAATAATTTCGGTTCGATTAACGG
*
2513885 TCAAATAAATTTCGGTTCGATTAACGA
1 TCAAAT-AATTTCGGTTCGATTAACGG
2513912 TCAAATAATTTCGGTTCGATTAA
1 TCAAATAATTTCGGTTCGATTAA
2513935 TGGTTAAAGA
Statistics
Matches: 78, Mismatches: 19, Indels: 7
0.75 0.18 0.07
Matches are distributed among these distances:
24 9 0.12
25 7 0.09
26 46 0.59
27 16 0.21
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (26 bp):
TCAAATAATTTCGGTTCGATTAACGG
Found at i:2513928 original size:77 final size:75
Alignment explanation
Indices: 2513797--2514014 Score: 270
Period size: 77 Copynumber: 3.0 Consensus size: 75
2513787 ATTTTATTCG
* * *
2513797 GTTAATAATTTTCAAATGAATTTTGGTTCGATTAACGGTCAAATAATTTTGGTTCGATTAATGGT
1 GTTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTCAAATAATTTCGGTTCGATTAATGGT
2513862 TAAA-AAAACTCA
66 TAAAGAAAA---A
*
2513874 GTTAATAATTTTCAAATAAATTTCGGTTCGATTAACGATCAAATAATTTCGGTTCGATTAATGGT
1 GTTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTCAAATAATTTCGGTTCGATTAATGGT
2513939 TAAAGAAAAA
66 TAAAGAAAAA
**** * *
2513949 ---AATTCGGTT--AATAAATTTCGATTCGATTAACGGTCAAATAATTTCAGTTCGATTAAT-GT
1 GTTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTCAAATAATTTCGGTTCGATTAATGGT
2514008 TAAAGAA
66 TAAAGAA
2514015 TAAAATTTGG
Statistics
Matches: 129, Mismatches: 11, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
69 9 0.07
70 45 0.35
72 5 0.04
75 1 0.01
77 65 0.50
78 4 0.03
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (75 bp):
GTTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTCAAATAATTTCGGTTCGATTAATGGT
TAAAGAAAAA
Found at i:2514001 original size:70 final size:69
Alignment explanation
Indices: 2513888--2514029 Score: 230
Period size: 70 Copynumber: 2.0 Consensus size: 69
2513878 ATAATTTTCA
* *
2513888 AATAAATTTCGGTTCGATTAACGATCAAATAATTTCGGTTCGATTAATGGTTAAAGAAAAAAATT
1 AATAAATTTCGATTCGATTAACGATCAAATAATTTCAGTTCGATTAAT-GTTAAAGAAAAAAATT
2513953 CGGTT
65 CGGTT
* * *
2513958 AATAAATTTCGATTCGATTAACGGTCAAATAATTTCAGTTCGATTAATGTTAAAGAATAAAATTT
1 AATAAATTTCGATTCGATTAACGATCAAATAATTTCAGTTCGATTAATGTTAAAGAAAAAAATTC
2514023 GGTT
66 GGTT
2514027 AAT
1 AAT
2514030 TTTGTTCGGT
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
69 22 0.33
70 45 0.67
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.36
Consensus pattern (69 bp):
AATAAATTTCGATTCGATTAACGATCAAATAATTTCAGTTCGATTAATGTTAAAGAAAAAAATTC
GGTT
Found at i:2515809 original size:228 final size:226
Alignment explanation
Indices: 2515403--2515850 Score: 781
Period size: 228 Copynumber: 2.0 Consensus size: 226
2515393 GTAAATTATC
* * *
2515403 TATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
2515468 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTT
66 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAA-TTTT
*
2515533 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAATATGAAACACTATTAAAAAAATTG
130 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
2515598 AAACATAAATTACATAACTTTCAAAAAAGTATA
195 AAACATAAATTACATAACTTT-AAAAAAGTATA
*
2515631 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTGG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATATTTATTATTATATTTAG
*
2515696 TTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAATATAA-TT
65 TTAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAA-ATAATTT
* *
2515760 TTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAATT
129 TTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATT
2515825 GAAACATAAATTACATAACTTTAAAA
194 GAAACATAAATTACATAACTTTAAAA
2515851 GCAGTTTTAA
Statistics
Matches: 210, Mismatches: 8, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
227 4 0.02
228 122 0.58
229 80 0.38
230 4 0.02
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.40
Consensus pattern (226 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTT
GTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGA
AACATAAATTACATAACTTTAAAAAAGTATA
Found at i:2515939 original size:20 final size:19
Alignment explanation
Indices: 2515916--2515961 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 19
2515906 CGATATACCA
2515916 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
2515936 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
2515956 GGTAAA
1 GGTAAA
2515962 TTTAAAAGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.54, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:2516106 original size:20 final size:20
Alignment explanation
Indices: 2516083--2516130 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
2516073 CGATATAACA
*
2516083 GGTAAAATTATGATAAAACC
1 GGTAAAATAATGATAAAACC
2516103 GGTAACAA-AATGATAAAACC
1 GGTAA-AATAATGATAAAACC
2516123 GGTAAAAT
1 GGTAAAAT
2516131 GATACCGGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 2 0.08
20 21 0.84
21 2 0.08
ACGTcount: A:0.52, C:0.10, G:0.17, T:0.21
Consensus pattern (20 bp):
GGTAAAATAATGATAAAACC
Found at i:2518411 original size:21 final size:21
Alignment explanation
Indices: 2518364--2518428 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
2518354 AAGACAATCA
* *
2518364 AGAGTCGAAGAGAAACTTGATC
1 AGAGTCGAAGAGAAACTCGA-G
*
2518386 A-AGTCGTAGAGAAACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
* *
2518406 AGAGTCGAAGATACACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
2518427 AG
1 AG
2518429 GAATAAGGGG
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.03
21 34 0.94
22 1 0.03
ACGTcount: A:0.40, C:0.15, G:0.29, T:0.15
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTCGAG
Found at i:2518504 original size:33 final size:33
Alignment explanation
Indices: 2518462--2518527 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
2518452 AAATAGATGG
*
2518462 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
2518495 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
2518528 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:2520344 original size:19 final size:19
Alignment explanation
Indices: 2520320--2520368 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
2520310 AATGTCGAGT
2520320 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
2520339 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
2520358 TATTTTTGTAT
1 TAATTTTGTAT
2520369 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:2521023 original size:198 final size:198
Alignment explanation
Indices: 2520487--2521852 Score: 2621
Period size: 198 Copynumber: 6.9 Consensus size: 198
2520477 CAATATGGCC
* *
2520487 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCAATCCCAAAATCATCGAAC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAAC
2520552 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
2520617 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAA
2520682 TGGAA
195 TGG-A
*
2520687 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCCAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
2520752 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
2520817 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
2520882 GGA
196 GGA
2520885 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
2520950 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
2521015 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
2521080 GGA
196 GGA
2521083 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
2521148 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTACACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
2521213 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTTGATACTTTTTTCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
2521278 GGA
196 GGA
2521281 AACAAGGTGCACCCATAAAGTGTCGATCC--ATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
2521344 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
2521409 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
2521474 GGA
196 GGA
2521477 AACAAGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
2521541 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
2521606 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
2521671 GGAA
196 GG-A
*
2521675 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCCAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
2521740 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
2521805 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACT
2521853 AATTTAAATA
Statistics
Matches: 1151, Mismatches: 11, Indels: 9
0.98 0.01 0.01
Matches are distributed among these distances:
196 194 0.17
197 161 0.14
198 461 0.40
199 301 0.26
200 34 0.03
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.31
Consensus pattern (198 bp):
AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
GGA
Found at i:2521680 original size:592 final size:594
Alignment explanation
Indices: 2520487--2521852 Score: 2621
Period size: 592 Copynumber: 2.3 Consensus size: 594
2520477 CAATATGGCC
* *
2520487 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCAATCCCAAAATCATCGAAC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAAC
2520552 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
2520617 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAA
2520682 TGGAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATC
195 TGGAAAACAAGGTGCACCCATAAAGTGTCGATCCA-ATATAAAAAGTGTCGATCCCAAAATCATC
2520747 CAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTAT
259 CAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTAT
2520812 GAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAA
324 GAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAA
2520877 TGAATGGAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATC
389 TGAATGGAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATC
2520942 ATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTT
454 ATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTT
*
2521007 TATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTTCCA
519 TATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCA
2521072 GAATGAATGGA
584 GAATGAATGGA
2521083 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
2521148 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTACACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
2521213 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTTGATACTTTTTTCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
*
2521278 GG-AAACAAGGTGCACCCATAAAGTGTCGATCC-ATATAAAAAGTGTCGATCCCAAAATCATCGA
196 GGAAAACAAGGTGCACCCATAAAGTGTCGATCCAATATAAAAAGTGTCGATCCCAAAATCATCCA
2521341 ACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGA
261 ACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGA
2521406 GAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATG
326 GAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATG
2521471 AATGGAAACAAGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCAT
391 AATGGAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCAT
2521535 CGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTA
456 CGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTA
2521600 TGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGA
521 TGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGA
2521665 ATGAATGGAA
586 ATGAATGG-A
*
2521675 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCCAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
2521740 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
2521805 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACT
2521853 AATTTAAATA
Statistics
Matches: 760, Mismatches: 9, Indels: 6
0.98 0.01 0.01
Matches are distributed among these distances:
591 160 0.21
592 377 0.50
594 30 0.04
595 159 0.21
596 34 0.04
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.31
Consensus pattern (594 bp):
AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
GGAAAACAAGGTGCACCCATAAAGTGTCGATCCAATATAAAAAGTGTCGATCCCAAAATCATCCA
ACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGA
GAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATG
AATGGAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCAT
CGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTA
TGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGA
ATGAATGGA
Found at i:2523295 original size:3 final size:3
Alignment explanation
Indices: 2523287--2523358 Score: 72
Period size: 3 Copynumber: 24.0 Consensus size: 3
2523277 TCTTTTAACA
* * * ** * *
2523287 GAT GAT GAT GAT GAA GAT GAA GCT GGC GAT GAA GAT GAT GAC GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
*
2523335 GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT
2523359 CCAAACAAGT
Statistics
Matches: 54, Mismatches: 15, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.36, C:0.04, G:0.35, T:0.25
Consensus pattern (3 bp):
GAT
Found at i:2524899 original size:183 final size:183
Alignment explanation
Indices: 2524557--2525393 Score: 1516
Period size: 183 Copynumber: 4.6 Consensus size: 183
2524547 CAAAGTTTTC
* * * * *
2524557 ACACTTTTTAATATTGTGTCTGTACTTTATGTCCAGAATGAAAGAAAAATGTGTCGATACCATTT
1 ACACTTTCTAATATTGTGTCGGTACTTTATGTTCAGATTGGAAGAAAAATGTGTCGATACCATTT
* *
2524622 AAAAAAGTGTCG--ATTGAAAAAACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAA
66 AAAAAAGTGTCGACATT---TACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAA
* *
2524685 TATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
128 TATAACCGGTATAAAAATACCGGTTTTATGAGCGAATAGGTCTACAACCTTTATCG
*
2524741 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
1 ACACTTTCTAATATTGTGTCGGTACTTTATGTTCAGATTGGAAGAAAAATGTGTCGATACCATTT
*
2524806 AAAAAAGTGTCGACATTTACACATCGGAACCCATATTTATAATGTAATAGATAATTTTGTAATAT
66 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
2524871 AACCGGTATAAAAATACCGGTTTTATGAGCGAATAGGTCTACAACCTTTATCG
131 AACCGGTATAAAAATACCGGTTTTATGAGCGAATAGGTCTACAACCTTTATCG
2524924 ACACTTTCTAATATTGTGTCGGTACTTTATGTTCAGATTGGAAGAAAAATGTGTCGATACCATTT
1 ACACTTTCTAATATTGTGTCGGTACTTTATGTTCAGATTGGAAGAAAAATGTGTCGATACCATTT
2524989 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
66 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
2525054 AACCGGTATAAAAATACCGGTTTTATGAGCGAATAGGTCTACAACCTTTATCG
131 AACCGGTATAAAAATACCGGTTTTATGAGCGAATAGGTCTACAACCTTTATCG
2525107 ACACTTTCTAATATTGTGTCGGTACTTTATGTTCAGATTGGAAGAAAAATGTGTCGATACCATTT
1 ACACTTTCTAATATTGTGTCGGTACTTTATGTTCAGATTGGAAGAAAAATGTGTCGATACCATTT
*
2525172 AAAAAAGTGTCGACATTTACACATCGGAACCTAGATTTATAATGTAATAGATAATTTTGTAATAT
66 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
*
2525237 AACCGGTATAAAAATACCGATTTTATGAGCGAATAGGTCTACAACCTTTATCG
131 AACCGGTATAAAAATACCGGTTTTATGAGCGAATAGGTCTACAACCTTTATCG
2525290 ACACTTTCTAATATTGTGTCGGTACTTTATGTTCAGATTGGAAGAAAAATGTGTCGATACCATTT
1 ACACTTTCTAATATTGTGTCGGTACTTTATGTTCAGATTGGAAGAAAAATGTGTCGATACCATTT
2525355 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTA
66 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTA
2525394 AGGTTATCTT
Statistics
Matches: 637, Mismatches: 14, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
183 561 0.88
184 73 0.11
186 3 0.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (183 bp):
ACACTTTCTAATATTGTGTCGGTACTTTATGTTCAGATTGGAAGAAAAATGTGTCGATACCATTT
AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
AACCGGTATAAAAATACCGGTTTTATGAGCGAATAGGTCTACAACCTTTATCG
Found at i:2528760 original size:37 final size:37
Alignment explanation
Indices: 2528674--2528766 Score: 123
Period size: 37 Copynumber: 2.5 Consensus size: 37
2528664 TTCATCATAC
* * *
2528674 TAGGATTTAAACTCTTAAAAATATGATAGAATTTTGT
1 TAGGATTTAAACTCCTAAAAATATGATAGAATTCTAT
* *
2528711 TAGGATTCAAACTCCTAAAAATATGATAGAGTTCTAT
1 TAGGATTTAAACTCCTAAAAATATGATAGAATTCTAT
**
2528748 TATTATTTAAACTCCTAAA
1 TAGGATTTAAACTCCTAAA
2528767 TATAGGATCT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.38
Consensus pattern (37 bp):
TAGGATTTAAACTCCTAAAAATATGATAGAATTCTAT
Found at i:2529216 original size:22 final size:23
Alignment explanation
Indices: 2529185--2529230 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 23
2529175 TATATGCATA
2529185 TATTTAATTATATTTTATTT-ATT
1 TATTTAATTATATTTT-TTTCATT
2529208 TATTT-ATTATATTTTTTTCATT
1 TATTTAATTATATTTTTTTCATT
2529230 T
1 T
2529231 TTCTTTGCGT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 3 0.14
22 14 0.64
23 5 0.23
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (23 bp):
TATTTAATTATATTTTTTTCATT
Found at i:2529271 original size:2 final size:2
Alignment explanation
Indices: 2529264--2529304 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
2529254 TTTCCTATTT
2529264 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2529305 ATTATTATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2529308 original size:6 final size:7
Alignment explanation
Indices: 2529263--2529313 Score: 54
Period size: 8 Copynumber: 7.3 Consensus size: 7
2529253 TTTTCCTATT
2529263 TTATATA
1 TTATATA
2529270 -TATATA
1 TTATATA
2529276 TATATATA
1 T-TATATA
2529284 TATATATA
1 T-TATATA
2529292 TATATATA
1 T-TATATA
2529300 TTATA-A
1 TTATATA
2529306 TTAT-TA
1 TTATATA
2529312 TT
1 TT
2529314 TTTATTTATG
Statistics
Matches: 41, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
6 14 0.34
7 4 0.10
8 23 0.56
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (7 bp):
TTATATA
Found at i:2529516 original size:6 final size:6
Alignment explanation
Indices: 2529505--2529546 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
2529495 ACATACATTT
* *
2529505 TTTATA TTTATA TATATA TATATA TTTATTA TTT-TA TTTATA
1 TTTATA TTTATA TTTATA TTTATA TTTA-TA TTTATA TTTATA
2529547 CTGTTTATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 5 0.16
6 22 0.69
7 5 0.16
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (6 bp):
TTTATA
Found at i:2529685 original size:20 final size:20
Alignment explanation
Indices: 2529662--2529718 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 20
2529652 ATCTTCATTT
2529662 ATTTTATTTTATTTTATTCA
1 ATTTTATTTTATTTTATTCA
* *
2529682 ATTTCATTTT-TTTTCATCCA
1 ATTTTATTTTATTTT-ATTCA
2529702 A--TTATTTTATGTTTATT
1 ATTTTATTTTAT-TTTATT
2529719 ATTATTGGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
18 6 0.20
19 7 0.23
20 17 0.57
ACGTcount: A:0.23, C:0.09, G:0.02, T:0.67
Consensus pattern (20 bp):
ATTTTATTTTATTTTATTCA
Found at i:2534039 original size:23 final size:23
Alignment explanation
Indices: 2534013--2534078 Score: 66
Period size: 23 Copynumber: 2.8 Consensus size: 23
2534003 AACAAAAAGG
2534013 GCAAAAACAAAAA-AAGAAAAGAA
1 GCAAAAACAAAAACAA-AAAAGAA
2534036 GCAAAAA-AGAAGAACAAAAAAGAA
1 GCAAAAACA-AA-AACAAAAAAGAA
*
2534060 -CAAAAATCAAAAAGAAAAA
1 GCAAAAA-CAAAAACAAAAA
2534079 GGGACAAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
22 1 0.03
23 22 0.59
24 11 0.30
25 3 0.08
ACGTcount: A:0.77, C:0.09, G:0.12, T:0.02
Consensus pattern (23 bp):
GCAAAAACAAAAACAAAAAAGAA
Found at i:2534041 original size:16 final size:15
Alignment explanation
Indices: 2534022--2534077 Score: 55
Period size: 16 Copynumber: 3.7 Consensus size: 15
2534012 GGCAAAAACA
2534022 AAAAAAGAAAAGAAGC
1 AAAAAAGAAAAGAA-C
2534038 AAAAAAG--AAGAAC
1 AAAAAAGAAAAGAAC
*
2534051 AAAAAAGAACAAAAATC
1 AAAAAAGAA-AAGAA-C
2534068 -AAAAAGAAAA
1 AAAAAAGAAAA
2534078 AGGGACAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
13 8 0.23
14 5 0.14
15 2 0.06
16 19 0.54
17 1 0.03
ACGTcount: A:0.79, C:0.07, G:0.12, T:0.02
Consensus pattern (15 bp):
AAAAAAGAAAAGAAC
Found at i:2534055 original size:13 final size:14
Alignment explanation
Indices: 2534031--2534059 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
2534021 AAAAAAAGAA
2534031 AAGAAGCAAAAAAG
1 AAGAAGCAAAAAAG
2534045 AAGAA-CAAAAAAG
1 AAGAAGCAAAAAAG
2534058 AA
1 AA
2534060 CAAAAATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.76, C:0.07, G:0.17, T:0.00
Consensus pattern (14 bp):
AAGAAGCAAAAAAG
Found at i:2534713 original size:22 final size:22
Alignment explanation
Indices: 2534682--2534736 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
2534672 GCTACCCCAT
*
2534682 CAAACTTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
2534704 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
2534726 CAAACCTTTGA
1 CAAACCTTTGA
2534737 CCAAACACAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.36, C:0.25, G:0.13, T:0.25
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATGC
Found at i:2535825 original size:106 final size:106
Alignment explanation
Indices: 2535699--2536969 Score: 1953
Period size: 106 Copynumber: 12.0 Consensus size: 106
2535689 ATATCGTGCC
* * * * * * *
2535699 ACTCGAGACAACACAAGTTCAACTTCACAACAAAGGTACGGATGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
2535764 AAATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
2535805 ACTCCAGACAACACAAGTTCAACTTCACGATGAAGGGACCGCTGGTTTTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * *
2535870 AATTTTAGATCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
2535911 ACTCCAGACAACGCAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
2535976 AATTTCAGAGCCAATTTTAACTTCACAGCGAAGGATATTAG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
2536017 ACTCAAGACAACGCAAGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCAAGAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
2536082 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
2536123 ACTCTAG---A--CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
2536183 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
2536224 ACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAACAAACAACTTCCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
2536289 AATTTCAGAGCCAATTTCAACTTTACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
2536330 ACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTAGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
2536395 AATTTCAGAGCCAATTTCAACTTCACAGCGAAAGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
2536436 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
2536501 AATTTCGGAGCCAATTTTAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
2536542 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACTGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
2536607 AATTTCAGAGCCAATTTCAACTTCACTA-CGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCAC-AGCGAAGGATATTGG
*
2536648 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
2536713 AATTTCAGAGCCAATTTCAACTTCACAGTGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
2536754 ACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * *
2536819 AATTTCGGAGCCAATTTCAACTTCACAACAAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
** * * * * *
2536860 ACTAGAGAAAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * *
2536925 GATTCCAGAGCCAATTTCAACTTCAC-GACGGAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGG
2536966 ACTC
1 ACTC
2536970 GGAATAATGC
Statistics
Matches: 1074, Mismatches: 83, Indels: 16
0.92 0.07 0.01
Matches are distributed among these distances:
101 95 0.09
103 1 0.00
104 1 0.00
105 1 0.00
106 975 0.91
107 1 0.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:2537800 original size:37 final size:37
Alignment explanation
Indices: 2537706--2537810 Score: 129
Period size: 37 Copynumber: 2.8 Consensus size: 37
2537696 ACCTTTCGTC
*
2537706 CTACTAGGATTCAAACTCCTAAAAATATGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
2537743 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
** * * *
2537780 CTACTATTATTTAAATTCCTAAATATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
2537811 CCACAAGCAT
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.33
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:2538269 original size:22 final size:23
Alignment explanation
Indices: 2538206--2538258 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
2538196 TAACCCTTAT
* *
2538206 TATTTATATGTATATATTTAATTA
1 TATTT-TATTTATTTATTTAATTA
2538230 TATTTTATTTATTTATTT-ATTA
1 TATTTTATTTATTTATTTAATTA
2538252 TAATTTT
1 T-ATTTT
2538259 TTTTTTCATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 5 0.19
23 16 0.62
24 5 0.19
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (23 bp):
TATTTTATTTATTTATTTAATTA
Found at i:2538359 original size:13 final size:13
Alignment explanation
Indices: 2538341--2538366 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2538331 TGTTTACTTA
2538341 TTTACTATATTTT
1 TTTACTATATTTT
2538354 TTTACTATATTTT
1 TTTACTATATTTT
2538367 CCTAACGTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTACTATATTTT
Found at i:2538521 original size:24 final size:24
Alignment explanation
Indices: 2538494--2538548 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 24
2538484 TTTAGTATTT
2538494 TATTATATTATACATACAT-TTTTA
1 TATTAT-TTATACATACATATTTTA
* * *
2538518 TATT-TTTATATATATATATTTTT
1 TATTATTTATACATACATATTTTA
2538541 TATTATTT
1 TATTATTT
2538549 TATTTATACT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 10 0.38
23 9 0.35
24 7 0.27
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.64
Consensus pattern (24 bp):
TATTATTTATACATACATATTTTA
Found at i:2538566 original size:28 final size:27
Alignment explanation
Indices: 2538484--2538581 Score: 76
Period size: 28 Copynumber: 3.6 Consensus size: 27
2538474 ATTATTACTA
* * *
2538484 TTTAGTATTTTATTATATTATACATACATT
1 TTTATTATTTTATT-TA-TATATATA-TTT
*
2538514 TTTA-TATTTT-TATATATATATATTT
1 TTTATTATTTTATTTATATATATATTT
*
2538539 TTTATTATTTTATTTATACTATTTATTT
1 TTTATTATTTTATTTATA-TATATATTT
*
2538567 ATTT-TTATTATATTT
1 -TTTATTATTTTATTT
2538582 TTAGTTTCTT
Statistics
Matches: 58, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
25 6 0.10
26 13 0.22
27 7 0.12
28 19 0.33
29 9 0.16
30 4 0.07
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (27 bp):
TTTATTATTTTATTTATATATATATTT
Found at i:2538579 original size:47 final size:48
Alignment explanation
Indices: 2538463--2538579 Score: 125
Period size: 47 Copynumber: 2.5 Consensus size: 48
2538453 ATTTTTCATT
* *
2538463 TATTTA-TTATTATTATTACTATTTAGTATTTTATTATATTATACATAC
1 TATTTATTTATTTTTATTA-TATATAGTATTTTATTATATTATACATAC
* * **
2538511 -ATTT-TTATATTTTTATATATATATA-TTTTTTATTATTTTATTTATAC
1 TATTTATT-TATTTTTAT-TATATATAGTATTTTATTATATTATACATAC
2538558 TATTTATTTATTTTTATTATAT
1 TATTTATTTATTTTTATTATAT
2538580 TTTTAGTTTC
Statistics
Matches: 58, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
47 28 0.48
48 26 0.45
49 4 0.07
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (48 bp):
TATTTATTTATTTTTATTATATATAGTATTTTATTATATTATACATAC
Found at i:2538694 original size:20 final size:19
Alignment explanation
Indices: 2538670--2538725 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
2538660 TTTTATCTTC
2538670 ATTTATTTTATTTTATTCA
1 ATTTATTTTATTTTATTCA
*
2538689 ATTTTATTTT-TTTTCATCCA
1 A-TTTATTTTATTTT-ATTCA
2538709 A-TTATTTTATATTTATT
1 ATTTATTTTAT-TTTATT
2538726 GTTATTGGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
18 7 0.23
19 8 0.26
20 16 0.52
ACGTcount: A:0.25, C:0.07, G:0.00, T:0.68
Consensus pattern (19 bp):
ATTTATTTTATTTTATTCA
Found at i:2539419 original size:2 final size:2
Alignment explanation
Indices: 2539412--2539484 Score: 146
Period size: 2 Copynumber: 36.5 Consensus size: 2
2539402 TATACAAAAG
2539412 AT AT AT AT 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 AT AT AT AT
2539454 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2539485 GTTTCAGTTG
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 71 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2549080 original size:42 final size:42
Alignment explanation
Indices: 2548997--2549100 Score: 118
Period size: 42 Copynumber: 2.5 Consensus size: 42
2548987 TCTGTGAAGG
* * ** **
2548997 CTTAAAAATTACCCGAAGGATTTAATTATCACGCTTGAAAGA
1 CTTACAAATGACCCGAAGGATTTAAGCATCACGCTCAAAAGA
*
2549039 CTTACAAATGACCCGAAGGATTTAAGCATCATGCTCAAAAGA
1 CTTACAAATGACCCGAAGGATTTAAGCATCACGCTCAAAAGA
** *
2549081 CTTACTGATGGCCCGAAGGA
1 CTTACAAATGACCCGAAGGA
2549101 CTTATAAATT
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (42 bp):
CTTACAAATGACCCGAAGGATTTAAGCATCACGCTCAAAAGA
Found at i:2549325 original size:131 final size:131
Alignment explanation
Indices: 2549081--2549367 Score: 459
Period size: 131 Copynumber: 2.2 Consensus size: 131
2549071 GCTCAAAAGA
*
2549081 CTTACTGATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCGCATTATTCGTTTTCAAA
1 CTTACGGATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCGCATTATTCGTTTTCAAA
* * * * *
2549146 AATTTCATCTTCTTAAAACATCATTTTTTATTTTCAAATTTATTTGAAAACATCCTACCCGAATG
66 AATTTCATCATCTTAAAACATCATTTTTTATTTTCAAACTCATATGAAAACATCCTACCCGAAGG
2549211 T
131 T
* *
2549212 CTTACGGATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAACTCGCATTCTTCGTTTTCAAA
1 CTTACGGATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCGCATTATTCGTTTTCAAA
*
2549277 AATTTCATCATCTTAAAACATCATTTTCTTATTTTTAAACTCA-ATGAAAACATCCTACCCGAAG
66 AATTTCATCATCTTAAAACATCATTTT-TTATTTTCAAACTCATATGAAAACATCCTACCCGAAG
2549341 GT
130 GT
* *
2549343 CTTATGGATGGCCTGAAGGACTTAT
1 CTTACGGATGGCCCGAAGGACTTAT
2549368 CATCTTGCTC
Statistics
Matches: 144, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
131 132 0.92
132 12 0.08
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (131 bp):
CTTACGGATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCGCATTATTCGTTTTCAAA
AATTTCATCATCTTAAAACATCATTTTTTATTTTCAAACTCATATGAAAACATCCTACCCGAAGG
T
Found at i:2549646 original size:37 final size:38
Alignment explanation
Indices: 2549595--2549907 Score: 261
Period size: 37 Copynumber: 8.3 Consensus size: 38
2549585 TCTTGCTCTA
2549595 AAGGCTTACAGATGGAATTGCTTCACTCATT-TCCGGTG
1 AAGGCTTA-AGATGGAATTGCTTCACTCATTCTCCGGTG
* * *
2549633 AAGGCTTCAGATGG-TTTGCTTCA-TTATTCTCCGGTG
1 AAGGCTTAAGATGGAATTGCTTCACTCATTCTCCGGTG
* * *
2549669 AAGGCTTAGGATGGATTTGCTTCACT-ATTCTCAGGTG
1 AAGGCTTAAGATGGAATTGCTTCACTCATTCTCCGGTG
*
2549706 AAGGCTTAAGATGGAATTTCTTCACTCATT-TCCGGTG
1 AAGGCTTAAGATGGAATTGCTTCACTCATTCTCCGGTG
*** * * *
2549743 AAGGCTTAAGATTGCCCTGAGGACTTAATCATCATGCT-C-G-G
1 AAGGCTTAAGA-TGGAAT--TG-CTTCA-C-TCATTCTCCGGTG
* * * * ** *
2549784 AAGACTTATTGATGGAGTTGCTTCACT-ACTCTTTGGTA
1 AAGGCTTA-AGATGGAATTGCTTCACTCATTCTCCGGTG
* * *
2549822 AAGGCTTAGGATGGATTTGCTTCACT-ATTCTCAGGTG
1 AAGGCTTAAGATGGAATTGCTTCACTCATTCTCCGGTG
*
2549859 AAGGCTTAAGATGGAATTGCTTCACTCATT-TCCGTTG
1 AAGGCTTAAGATGGAATTGCTTCACTCATTCTCCGGTG
2549896 AAGGCTTAAGAT
1 AAGGCTTAAGAT
2549908 TTCCCTGAGG
Statistics
Matches: 220, Mismatches: 39, Indels: 33
0.75 0.13 0.11
Matches are distributed among these distances:
35 7 0.03
36 28 0.13
37 131 0.60
38 28 0.13
39 1 0.00
41 15 0.07
42 4 0.02
43 5 0.02
44 1 0.00
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (38 bp):
AAGGCTTAAGATGGAATTGCTTCACTCATTCTCCGGTG
Found at i:2549851 original size:153 final size:153
Alignment explanation
Indices: 2549669--2549951 Score: 530
Period size: 153 Copynumber: 1.8 Consensus size: 153
2549659 TTCTCCGGTG
*
2549669 AAGGCTTAGGATGGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATGGAATTTCTTCACTCA
1 AAGGCTTAGGATGGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATGGAATTGCTTCACTCA
*
2549734 TTTCCGGTGAAGGCTTAAGATTGCCCTGAGGACTTAATCATCATGCTCGGAAGACTTATTGATGG
66 TTTCCGGTGAAGGCTTAAGATTGCCCTGAGGACTTAATCATCATGCTCGAAAGACTTATTGATGG
2549799 AGTTGCTTCACTACTCTTTGGTA
131 AGTTGCTTCACTACTCTTTGGTA
2549822 AAGGCTTAGGATGGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATGGAATTGCTTCACTCA
1 AAGGCTTAGGATGGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATGGAATTGCTTCACTCA
* *
2549887 TTTCCGTTGAAGGCTTAAGATTTCCCTGAGGACTTAATCATCATGCTCGAAAGACTTATTGATGG
66 TTTCCGGTGAAGGCTTAAGATTGCCCTGAGGACTTAATCATCATGCTCGAAAGACTTATTGATGG
2549952 CCCGAAGGAC
Statistics
Matches: 126, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
153 126 1.00
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (153 bp):
AAGGCTTAGGATGGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATGGAATTGCTTCACTCA
TTTCCGGTGAAGGCTTAAGATTGCCCTGAGGACTTAATCATCATGCTCGAAAGACTTATTGATGG
AGTTGCTTCACTACTCTTTGGTA
Found at i:2550160 original size:42 final size:41
Alignment explanation
Indices: 2550079--2550179 Score: 121
Period size: 42 Copynumber: 2.4 Consensus size: 41
2550069 AGGTCTTATG
* * * * *
2550079 GATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACA
1 GATGACCCGAAGGACTTAGCATCATGCTCGAAAGACTTACA
* *
2550120 GATGACCCGAAGGATTTACGCATCATGCTCGAAAGACTTACT
1 GATGACCCGAAGGACTTA-GCATCATGCTCGAAAGACTTACA
*
2550162 GATGTCCCGAAGGACTTA
1 GATGACCCGAAGGACTTA
2550180 TAAATTGTGA
Statistics
Matches: 50, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
41 16 0.32
42 34 0.68
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.25
Consensus pattern (41 bp):
GATGACCCGAAGGACTTAGCATCATGCTCGAAAGACTTACA
Found at i:2550296 original size:215 final size:216
Alignment explanation
Indices: 2549925--2550530 Score: 991
Period size: 215 Copynumber: 2.8 Consensus size: 216
2549915 AGGACTTAAT
* *
2549925 CATCATGCTCGAAAGACTTATTGATGGCCCGAAGGACTTATAAATTGTGAAATTCTGAGAATCGC
1 CATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGAAATTCTGAAAATCGC
*
2549990 ATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAACATCACTTTTTCATTTTCAAATTCTTGTGAA
66 ATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAACATCACTTTCTCATTTTCAAATTCTTGTGAA
*
2550055 AACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACA
131 AACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCGTGCTCTAAAGGCTTACA
*
2550120 GATGACCCGAAGGATTT-ACG
196 GATGACCCGAAGGATTTAAAG
*
2550140 CATCATGCTCGAAAGACTTACTGATGTCCCGAAGGACTTATAAATTGTGAAATTCTGAAAATCGC
1 CATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGAAATTCTGAAAATCGC
* *
2550205 ATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAATATCACTTTCTCCTTTTCAAATTCTTGTGAA
66 ATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAACATCACTTTCTCATTTTCAAATTCTTGTGAA
* *
2550270 AACATCCTACCTGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCGTGCTCTAAAGGCTTATA
131 AACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCGTGCTCTAAAGGCTTACA
2550335 GATGACCCGAAGGATTTAAAG
196 GATGACCCGAAGGATTTAAAG
* * *
2550356 CATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACAAATCGTGAAATTTTGAAAATCGC
1 CATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGAAATTCTGAAAATCGC
* * * * *
2550421 ATTCTTTGTTTTCAAAATTTTCATCTTCTTCAAAACATTATTTTTTCTCATTCTCAAATTCATT-
66 ATTCTTCGTTTTCAAAAATTTCATCTTCTT-AAAACATCA--CTTTCTCATTTTCAAATTC-TTG
*
2550485 TGAAAACATCCTACCCGAAGGTCTTATGGATTGCCCGAAGGACTTA
127 TGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTA
2550531 ACTTGATGGC
Statistics
Matches: 363, Mismatches: 23, Indels: 6
0.93 0.06 0.02
Matches are distributed among these distances:
215 203 0.56
216 91 0.25
217 7 0.02
219 60 0.17
220 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (216 bp):
CATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGAAATTCTGAAAATCGC
ATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAACATCACTTTCTCATTTTCAAATTCTTGTGAA
AACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCGTGCTCTAAAGGCTTACA
GATGACCCGAAGGATTTAAAG
Found at i:2550387 original size:43 final size:41
Alignment explanation
Indices: 2550288--2550395 Score: 119
Period size: 43 Copynumber: 2.6 Consensus size: 41
2550278 ACCTGAAGGT
* * * * *
2550288 CTTATGGATGGCCCGAAGGACTTATCATCGTGCTCTAAAGG
1 CTTATAGATGGCCCGAAGGACTTAGCATCATGCTCGAAAGA
* *
2550329 CTTATAGATGACCCGAAGGATTTAAAGCATCATGCTCGAAAGA
1 CTTATAGATGGCCCGAAGGACTT--AGCATCATGCTCGAAAGA
2550372 CTTACT-GATGGCCCGAAGGACTTA
1 CTTA-TAGATGGCCCGAAGGACTTA
2550396 CAAATCGTGA
Statistics
Matches: 55, Mismatches: 9, Indels: 6
0.79 0.13 0.09
Matches are distributed among these distances:
41 21 0.38
43 33 0.60
44 1 0.02
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (41 bp):
CTTATAGATGGCCCGAAGGACTTAGCATCATGCTCGAAAGA
Found at i:2554159 original size:21 final size:20
Alignment explanation
Indices: 2554135--2554225 Score: 87
Period size: 22 Copynumber: 4.3 Consensus size: 20
2554125 TTCCTTATTA
*
2554135 TTTTTATTATTTTTTCTGTTC
1 TTTTTTTTATTTTTTCT-TTC
*
2554156 TTTTTTTTCTCTTTTTC-TTC
1 TTTTTTTTAT-TTTTTCTTTC
2554176 -TTTTTTTATTTTTTCTTCTTC
1 TTTTTTTTATTTTTTC-T-TTC
2554197 TTCTTTTTTCATTTTTTCTTTC
1 TT-TTTTTT-ATTTTTTCTTTC
2554219 ATTTTTT
1 -TTTTTT
2554226 GAGTGTAGAA
Statistics
Matches: 59, Mismatches: 3, Indels: 15
0.77 0.04 0.19
Matches are distributed among these distances:
18 6 0.10
19 8 0.14
20 3 0.05
21 11 0.19
22 14 0.24
23 9 0.15
24 8 0.14
ACGTcount: A:0.05, C:0.14, G:0.01, T:0.79
Consensus pattern (20 bp):
TTTTTTTTATTTTTTCTTTC
Found at i:2554181 original size:18 final size:18
Alignment explanation
Indices: 2554153--2554195 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
2554143 ATTTTTTCTG
2554153 TTCTT-TTTTTTCT-CTTT
1 TTCTTCTTTTTT-TACTTT
*
2554170 TTCTTCTTTTTTTATTTT
1 TTCTTCTTTTTTTACTTT
2554188 TTCTTCTT
1 TTCTTCTT
2554196 CTTCTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 6 0.26
18 17 0.74
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.81
Consensus pattern (18 bp):
TTCTTCTTTTTTTACTTT
Found at i:2554192 original size:24 final size:24
Alignment explanation
Indices: 2554159--2554217 Score: 91
Period size: 24 Copynumber: 2.4 Consensus size: 24
2554149 TCTGTTCTTT
*
2554159 TTTTTCTCTTTTTCTTCTTTTTTTA
1 TTTTT-TCTTTTTCTTCTTTTTTCA
*
2554184 TTTTTTCTTCTTCTTCTTTTTTCA
1 TTTTTTCTTTTTCTTCTTTTTTCA
2554208 TTTTTTCTTT
1 TTTTTTCTTT
2554218 CATTTTTTGA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
24 26 0.84
25 5 0.16
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (24 bp):
TTTTTTCTTTTTCTTCTTTTTTCA
Found at i:2554205 original size:18 final size:18
Alignment explanation
Indices: 2554167--2554205 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
2554157 TTTTTTTCTC
*
2554167 TTTTTCTTCTTTTTTTAT
1 TTTTTCTTCTTTTCTTAT
2554185 TTTTTCTTCTTCTTCTT-T
1 TTTTTCTTCTT-TTCTTAT
2554203 TTT
1 TTT
2554206 CATTTTTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (18 bp):
TTTTTCTTCTTTTCTTAT
Found at i:2554224 original size:43 final size:40
Alignment explanation
Indices: 2554136--2554225 Score: 110
Period size: 42 Copynumber: 2.1 Consensus size: 40
2554126 TCCTTATTAT
* *
2554136 TTTTATTATTTTTTCTGTTCTTTTTTTTCTCTTTTTCTTCT
1 TTTT-TTATTTTTTCTCTTCTTTTTTTTCTCTTTTTCTTCA
2554177 TTTTTTATTTTTTCTTCTTCTTCTTTTTTCAT-TTTTTCTTTCA
1 TTTTTTATTTTTTC-TCTTCTT-TTTTTTC-TCTTTTTC-TTCA
2554220 TTTTTT
1 TTTTTT
2554226 GAGTGTAGAA
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
40 10 0.23
41 10 0.23
42 13 0.30
43 10 0.23
ACGTcount: A:0.06, C:0.14, G:0.01, T:0.79
Consensus pattern (40 bp):
TTTTTTATTTTTTCTCTTCTTTTTTTTCTCTTTTTCTTCA
Found at i:2567761 original size:24 final size:25
Alignment explanation
Indices: 2567728--2567778 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 25
2567718 TGTCTTTATG
* *
2567728 ACACGTTTTTCTCTGTTCTTGTGGC
1 ACACGTTTTTCTCTGCTATTGTGGC
2567753 ACACG-TTTTCTCTGCTATTGTGGC
1 ACACGTTTTTCTCTGCTATTGTGGC
2567777 AC
1 AC
2567779 GATCTTTATG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 19 0.79
25 5 0.21
ACGTcount: A:0.12, C:0.25, G:0.20, T:0.43
Consensus pattern (25 bp):
ACACGTTTTTCTCTGCTATTGTGGC
Found at i:2572247 original size:105 final size:106
Alignment explanation
Indices: 2572065--2572294 Score: 277
Period size: 105 Copynumber: 2.2 Consensus size: 106
2572055 TGACCATCTA
* * * * ** *
2572065 TTCGACACAATTATCGATATAAATTGTGATGATCTTTTTTTGACACTATAAATATATTTTGTGAC
1 TTCGATACTATTATCAATAGAAATTGTGATGAAATTTATTTGACACTATAAATATATTTTGTGAC
* * *
2572130 CATAAATATTGTCACATTATGTATTTTTTAGTGACCAAATG
66 CACAAATATTGTCACAATAAGTATTTTTTAGTGACCAAATG
2572171 TTCGATACTATTATCAATAGAAATTGTGAT-AAATTTATTTGACA-T-TGAAAGTATATTTTGTG
1 TTCGATACTATTATCAATAGAAATTGTGATGAAATTTATTTGACACTAT-AAA-TATATTTTGTG
* * *
2572233 ACCACCAATGTTGTCACAATAAGTGTTTTTTAGTGACCAAATG
64 ACCACAAATATTGTCACAATAAGTATTTTTTAGTGACCAAATG
** *
2572276 TTATATACTATTAACAATA
1 TTCGATACTATTATCAATA
2572295 ACTCTGTCAT
Statistics
Matches: 106, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
103 1 0.01
104 4 0.04
105 75 0.71
106 26 0.25
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.41
Consensus pattern (106 bp):
TTCGATACTATTATCAATAGAAATTGTGATGAAATTTATTTGACACTATAAATATATTTTGTGAC
CACAAATATTGTCACAATAAGTATTTTTTAGTGACCAAATG
Found at i:2573872 original size:42 final size:41
Alignment explanation
Indices: 2573825--2573975 Score: 162
Period size: 42 Copynumber: 3.6 Consensus size: 41
2573815 TTCACTTCAA
* * *
2573825 TAGTGATAAAAATTATTGTCGTCACAAATCACCAACTAAGAC
1 TAGTGA-AAAAATAATTATCATCACAAATCACCAACTAAGAC
* * *
2573867 TAGTGACAAAAACAATTATCATCACAAATCATCAATTAAGAC
1 TAGTGA-AAAAATAATTATCATCACAAATCACCAACTAAGAC
** *
2573909 TAGTGACCAAATCAATTATCATCACAAATTACCAACTAAGAC
1 TAGTGAAAAAAT-AATTATCATCACAAATCACCAACTAAGAC
*
2573951 TAGT-AACAAAAT-GTTATCATCACAA
1 TAGTGAA-AAAATAATTATCATCACAA
2573976 TTATGAATAG
Statistics
Matches: 91, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
40 12 0.13
41 4 0.04
42 75 0.82
ACGTcount: A:0.46, C:0.20, G:0.09, T:0.25
Consensus pattern (41 bp):
TAGTGAAAAAATAATTATCATCACAAATCACCAACTAAGAC
Found at i:2583927 original size:36 final size:36
Alignment explanation
Indices: 2583880--2584034 Score: 222
Period size: 36 Copynumber: 4.3 Consensus size: 36
2583870 AGTCAATCCT
2583880 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTG
1 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTG
* * *
2583916 AAGCCTTCACCGGATAATAGTGAAGCAATCAATCTG
1 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTG
2583952 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCAT-
1 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATC-TG
* * * *
2583988 AAGTCTTCACCAGAGAGTAGTGAAGCAAACCATCTT
1 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTG
*
2584024 AAGTCTTCACC
1 AAGCCTTCACC
2584035 AAAAAGTAGT
Statistics
Matches: 108, Mismatches: 9, Indels: 4
0.89 0.07 0.03
Matches are distributed among these distances:
35 1 0.01
36 106 0.98
37 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.20
Consensus pattern (36 bp):
AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTG
Found at i:2584515 original size:51 final size:51
Alignment explanation
Indices: 2584450--2585322 Score: 799
Period size: 51 Copynumber: 16.6 Consensus size: 51
2584440 AAGATTATTT
* *
2584450 GAGTTCCATACTCCCTAGAGAGAGAGGGAGCGAACCCGTTTGAAGATGTCC
1 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTC
* * * * *
2584501 GAGTTCCATACTCCCTAGAGAAAGAAGGAACGAACCCGTGTGAAGATATGC
1 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTC
* * * *
2584552 GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
1 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTC
* * *
2584603 GAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGA-GATGTC
1 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATG-T-TC
* * *
2584655 TGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTGTGAAGATATGC
1 -GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTC
* * * *
2584707 GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
1 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTC
* * *
2584758 GAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGA-GATGTC
1 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATG-T-TC
* * *
2584810 TGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTATGAAGATATCC
1 -GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTC
* *
2584862 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTC
1 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTC
* *
2584913 GAGTTCTATACTCCCTAGAGAAAGGGGGAGCGAACCCGTTTGAAGAATATGTTC
1 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAG---ATGTTC
2584967 GAGTTCCATACTCCCT-GAAGAAAGAGGGAGCGAACCCGTTTTCAGAAGATTGTTC
1 GAGTTCCATACTCCCTAG-AGAAAGAGGGAGCGAACCCG-TTT--GAAGA-TGTTC
* * * * ** *
2585022 GAGTTCTATACTTCCTGGAGAAAGAGCGAAGCGAACCCGTAAGAAGAAGATCTTC
1 GAGTTCCATACTCCCTAGAGAAAGAG-GGAGCGAACCCGT---TTGAAGATGTTC
* * *
2585077 GAGTTCTATACTCCCT-GAAGAAAGAGGGAGCGAGCCCGTTTTCAGAAGATCATTC
1 GAGTTCCATACTCCCTAG-AGAAAGAGGGAGCGAACCCG-TTT--GAAGAT-GTTC
* * * * * *
2585132 GAGTTCTATACTTCCTGAAAGAAAGAGGGAGCAAACCCGTTTCCAAAAGACTATTC
1 GAGTTCCATACTCCCT-AGAGAAAGAGGGAGCGAACCCGTTT---GAAGA-TGTTC
* * * * ** * *
2585188 GAGTTCTATACTCCTTAAAGAAA-A---AGGGAATTCGCTTACAGAAGATTATTC
1 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCG-TT--TGAAGA-TGTTC
* * * * **
2585239 AAGTTCTATACTCCCTAGAGAAAGAGAGAGCGAACCTGTAAGAAGAAGATGTTC
1 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGT---TTGAAGATGTTC
* * *
2585293 GAGTTTCATAATCCCTAGAGAAATAGGGAG
1 GAGTTCCATACTCCCTAGAGAAAGAGGGAG
2585323 TAGACCCGAT
Statistics
Matches: 698, Mismatches: 84, Indels: 77
0.81 0.10 0.09
Matches are distributed among these distances:
50 2 0.00
51 349 0.50
52 9 0.01
53 87 0.12
54 88 0.13
55 99 0.14
56 59 0.08
57 5 0.01
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.22
Consensus pattern (51 bp):
GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTC
Found at i:2584730 original size:155 final size:155
Alignment explanation
Indices: 2584450--2585322 Score: 955
Period size: 155 Copynumber: 5.5 Consensus size: 155
2584440 AAGATTATTT
* * *
2584450 GAGTTCCATACTCCCTAGAGAGAGAGGGAGCGAACCCGTTTG-A-AGATGTCCGAGTTCCATACT
1 GAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAGATGTCTGAGTTCCATACT
* *
2584513 CCCTAGAGAAAGAAGGAACGAACCCGTGTGAAGATATGCGAGTTCTATACTCCTTAAAGAAAGAA
66 CCCTAGAGAAAGAGGGAGCGAACCCGTGTGAAGATATGCGAGTTCTATACTCCTTAAAGAAAGAA
2584578 GGAGCGAACCCGTTTGAAGATGTTC
131 GGAGCGAACCCGTTTGAAGATGTTC
* *
2584603 GAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAGATGTCTGAGTTCCATACT
1 GAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAGATGTCTGAGTTCCATACT
2584668 CCCTAGAGAAAGAGGGAGCGAACCCGTGTGAAGATATGCGAGTTCTATACTCCTTAAAGAAAGAA
66 CCCTAGAGAAAGAGGGAGCGAACCCGTGTGAAGATATGCGAGTTCTATACTCCTTAAAGAAAGAA
2584733 GGAGCGAACCCGTTTGAAGATGTTC
131 GGAGCGAACCCGTTTGAAGATGTTC
* *
2584758 GAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAGATGTCTGAGTTCCATACT
1 GAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAGATGTCTGAGTTCCATACT
* * * *
2584823 CCCTAGAGAAAGAGGGAGCGAACCCGTATGAAGATATCCGAGTTCTATACTCCCTAAAGAAAGAG
66 CCCTAGAGAAAGAGGGAGCGAACCCGTGTGAAGATATGCGAGTTCTATACTCCTTAAAGAAAGAA
2584888 GGAGCGAACCCGTTTGAAGATGTTC
131 GGAGCGAACCCGTTTGAAGATGTTC
* * * *
2584913 GAGTTCTATACTCCCTAGAGAAAGGGGGAGCGAACCCGTTTGAAGAATATGT-TCGAGTTCCATA
1 GAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAG-AGATGTCT-GAGTTCCATA
* *
2584977 CTCCCT-GAAGAAAGAGGGAGCGAACCCGTTTTCAGAAGAT-TGTTCGAGTTCTATACTTCC-TG
64 CTCCCTAG-AGAAAGAGGGAGCGAACCCG-TGT--GAAGATATG--CGAGTTCTATAC-TCCTTA
* ** *
2585039 GAGAAAG-AGCGAAGCGAACCCGTAAGAAGAAGATCTTC
122 AAGAAAGAAG-G-AGCGAACCCGT---TTGAAGATGTTC
* * * * *
2585077 GAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAGCCCGTTTTCAGAAGATCAT-TC-GAGTTCTA
1 GAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCG-TTT--GAAGA-GATGTCTGAGTTCCA
* * * * * *
2585140 TACTTCCTGAAAGAAAGAGGGAGCAAACCCGTTTCCAAAAGACTATTCGAGTTCTATACTCCTTA
62 TACTCCCT-AGAGAAAGAGGGAGCGAACCCGTGT---GAAGA-TATGCGAGTTCTATACTCCTTA
** * *
2585205 AAGAAA-AA-G-G-GAATTCGCTTACAGAAGATTATTC
122 AAGAAAGAAGGAGCGAACCCG-TT--TGAAGA-TGTTC
* * * * * ** *
2585239 AAGTTCTATACTCCCTAGAGAAAGAGAGAGCGAACCTGTAAGAAGAAGATGT-TCGAGTTTCATA
1 GAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAG-AGATGTCT-GAGTTCCATA
* *
2585303 ATCCCTAGAGAAATAGGGAG
64 CTCCCTAGAGAAAGAGGGAG
2585323 TAGACCCGAT
Statistics
Matches: 627, Mismatches: 57, Indels: 65
0.84 0.08 0.09
Matches are distributed among these distances:
153 38 0.06
154 1 0.00
155 300 0.48
156 41 0.07
157 2 0.00
158 1 0.00
159 13 0.02
160 34 0.05
161 38 0.06
162 38 0.06
164 44 0.07
165 23 0.04
166 46 0.07
167 7 0.01
168 1 0.00
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.22
Consensus pattern (155 bp):
GAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAGATGTCTGAGTTCCATACT
CCCTAGAGAAAGAGGGAGCGAACCCGTGTGAAGATATGCGAGTTCTATACTCCTTAAAGAAAGAA
GGAGCGAACCCGTTTGAAGATGTTC
Found at i:2584803 original size:206 final size:205
Alignment explanation
Indices: 2584449--2585322 Score: 899
Period size: 206 Copynumber: 4.2 Consensus size: 205
2584439 GAAGATTATT
* * * *
2584449 TGAGTTCCATACTCCCTAGAGAGAGAGGGAGCGAACCCGTTTGAAGATGTCCGAGTTCCATACTC
1 TGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATATTCGAGTTCTATACTC
* * * * *
2584514 CCTAGAGAAAGAAGGAACGAACCCGTGTGAAGATATGCGAGTTCTATACTCCTTAAAGAAAGAAG
66 CCTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATATTCGAGTTCCATACTCCTTAAAGAAAGAAG
* *
2584579 GAGCGAACCCGTTTGAAGATGTTCGAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTT
131 GAGCGAACCCGTTTGAAGATGTTCGAGTTCCATACTCC-TAGAGAAAGAAGGAGCGAACCCGTAT
*
2584644 GAAGAGATGTC
195 GAAGAGATATC
* *
2584655 TGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTGTGAAGATATGCGAGTTCTATACTC
1 TGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATATTCGAGTTCTATACTC
* *
2584720 CTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTCGAGTTCCATACTCCTTAAAGAAAGAAG
66 CCTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATATTCGAGTTCCATACTCCTTAAAGAAAGAAG
*
2584785 GAGCGAACCCGTTTGAAGA-GATGTCTGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCG
131 GAGCGAACCCGTTTGAAGATG-T-TC-GAGTTCCATACT-CCTAGAGAAAGAAGGAGCGAACCCG
2584849 TATG-A-AGATATC
192 TATGAAGAGATATC
* * * *
2584861 CGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTCGAGTTCTATACTC
1 TGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATATTCGAGTTCTATACTC
* ** * *
2584926 CCTAGAGAAAGGGGGAGCGAACCCGTTTGAAGAATATGTTCGAGTTCCATACTCCCTGAAGAAAG
66 CCTAAAGAAAGAAGGAGCGAACCCGTTTGAAG-ATA--TTCGAGTTCCATACTCCTTAAAGAAAG
* * *
2584991 AGGGAGCGAACCCGTTTTCAGAAGATTGTTCGAGTTCTATACTTCCTGGAGAAAG-AGCGAAGCG
128 AAGGAGCGAACCCG-TTT--GAAGA-TGTTCGAGTTCCATAC-TCCTAGAGAAAGAAG-G-AGCG
* *
2585055 AACCCGTAAGAAGA-AGATC
186 AACCCGTATGAAGAGATATC
* *
2585074 TTCGAGTTCTATACTCCCT-GAAGAAAGAGGGAGCGAGCCCGTTTTCAGAAGATCATTCGAGTTC
1 -T-GAGTTCCATACTCCCTAG-AGAAAGAGGGAGCGAACCCG-TTT--GAAGAT-ATTCGAGTTC
* * * * *
2585138 TATACTTCCTGAAAGAAAGAGGGAGCAAACCCGTTTCCAAAAGACTATTCGAGTTCTATACTCCT
59 TATACTCCCT-AAAGAAAGAAGGAGCGAACCCGTTT---GAAGA-TATTCGAGTTCCATACTCCT
** * * * *
2585203 TAAAGAAA-AA-G-G-GAATTCGCTTACAGAAGATTATTCAAGTTCTATACTCCCTAGAGAAAG-
119 TAAAGAAAGAAGGAGCGAACCCG-TT--TGAAGA-TGTTCGAGTTCCATACT-CCTAGAGAAAGA
* * *
2585263 AGAGAGCGAACCTGTAAGAAGAAGATGT-
179 AG-GAGCGAACCCGTATGAAG-AGATATC
* * *
2585291 TCGAGTTTCATAATCCCTAGAGAAATAGGGAG
1 T-GAGTTCCATACTCCCTAGAGAAAGAGGGAG
2585323 TAGACCCGAT
Statistics
Matches: 570, Mismatches: 63, Indels: 60
0.82 0.09 0.09
Matches are distributed among these distances:
205 1 0.00
206 231 0.41
207 5 0.01
208 36 0.06
209 40 0.07
210 4 0.01
211 21 0.04
212 21 0.04
213 6 0.01
214 2 0.00
215 35 0.06
216 46 0.08
217 42 0.07
218 9 0.02
219 19 0.03
220 23 0.04
221 23 0.04
222 1 0.00
223 5 0.01
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.22
Consensus pattern (205 bp):
TGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATATTCGAGTTCTATACTC
CCTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATATTCGAGTTCCATACTCCTTAAAGAAAGAAG
GAGCGAACCCGTTTGAAGATGTTCGAGTTCCATACTCCTAGAGAAAGAAGGAGCGAACCCGTATG
AAGAGATATC
Found at i:2585376 original size:55 final size:55
Alignment explanation
Indices: 2585311--2586083 Score: 878
Period size: 55 Copynumber: 14.2 Consensus size: 55
2585301 TAATCCCTAG
* * * *
2585311 AGAAATAGGGAGTAGACCCGATTGTTGAAGTTTGTTCGAGTCTTATACTCTCTGA
1 AGAAATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
* * * *
2585366 A-AGAATAGGGAGCAGACACGATTGTTGAAGATTATTCGAGTCTCATACTCTCTGA
1 AGA-AATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
* * * *
2585421 A-AGAATAGGGAGTAGACACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGA
1 AGA-AATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
* * * * * * *
2585476 AGGAATAGGGAGCATACACG-TT-TTCAAAAGATT-TTCGAGT-TCTATACTCCCTGG
1 AGAAATAGGGGGCAGACGCGATTGTT--GAAGATTGTTCGAGTCT-TATACTCTCTGA
* ** * * *
2585530 AGAAAGAGGGAAC-GAACCCGATCGTTGAAGATTG-T-GGGTCTTATACTCTCTGA
1 AGAAATAGGGGGCAG-ACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
* * *
2585583 AGAAATAGGGGGCAGACGCAATAGTTGAAGATTGTTCGGGTCTTATACTCTCTGA
1 AGAAATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
*
2585638 AGAAATAGGGGGCAGACGC-AGTCGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
1 AGAAATAGGGGGCAGACGCGA-TTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
* * *
2585693 AGAAATAGGGGGCAGACGCAATAGTTGAAGATTGTTCGGGTCTTATACTCTCTGA
1 AGAAATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
*
2585748 AGAAATAGGGGGCAGACGC-AGTCGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
1 AGAAATAGGGGGCAGACGCGA-TTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
* *
2585803 AGAAATAGGGGGCAGACGCGATTGATGAAGATTG-T-GGGTCTTATACTCTCTGA
1 AGAAATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
* * **
2585856 AGAAAAAGGGGGCAGACGCAATCATTGAAGATTGTTCG-GATCTTATACTCTCTGA
1 AGAAATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGAG-TCTTATACTCTCTGA
* * * *
2585911 AGAAATAGGGGGCAGATGCGATTGATGAAGATT-AT-GGGTCTTATACTCTCTGA
1 AGAAATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
* * *
2585964 AGAAATAAGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
1 AGAAATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
** * * *
2586019 AGAAATAGGGGGCAGACAAGTTTGTTGAAGA-TGATTCAAGTCTTATACCCTCTGA
1 AGAAATAGGGGGCAGACGCGATTGTTGAAGATTG-TTCGAGTCTTATACTCTCTGA
2586074 AGAAATAGGG
1 AGAAATAGGG
2586084 AGCGAACTCA
Statistics
Matches: 628, Mismatches: 66, Indels: 48
0.85 0.09 0.06
Matches are distributed among these distances:
53 132 0.21
54 53 0.08
55 439 0.70
56 4 0.01
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.27
Consensus pattern (55 bp):
AGAAATAGGGGGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
Found at i:2585672 original size:108 final size:110
Alignment explanation
Indices: 2585334--2586083 Score: 881
Period size: 108 Copynumber: 6.9 Consensus size: 110
2585324 AGACCCGATT
* * * *
2585334 GTTGAAGTTTGTTCGAGTCTTATACTCTCTGAA-AGAATAGGGAGCAGACACGATTGTTGAAGAT
1 GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGA-AATAGGGGGCAGACGCAATTGTTGAAGAT
* * * * * * *
2585398 TATTCGAGTCTCATACTCTCTGAA-AGAATAGGGAGTAGACAC-GATT
65 TGTTCGGGTCTTATACTCTCTGAAGA-AATAGGGGGCAGACGCAG-TC
* * * * * * *
2585444 GTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGGAATAGGGAGCATACAC-GTT-TTCAAAAGA
1 GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATTGTT--GAAGA
* * * * ** *
2585507 TT-TTCGAGT-TCTATACTCCCTGGAGAAAGAGGGAAC-GAAC-CCGATC
64 TTGTTCGGGTCT-TATACTCTCTGAAGAAATAGGGGGCAG-ACGCAG-TC
* *
2585553 GTTGAAGATTG-T-GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATAGTTGAAGATT
1 GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATTGTTGAAGATT
2585616 GTTCGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAGTC
66 GTTCGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAGTC
*
2585661 GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATAGTTGAAGATT
1 GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATTGTTGAAGATT
2585726 GTTCGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAGTC
66 GTTCGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAGTC
* *
2585771 GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAGATT
1 GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATTGTTGAAGATT
* *
2585836 G-T-GGGTCTTATACTCTCTGAAGAAAAAGGGGGCAGACGCAATC
66 GTTCGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAGTC
* * * *
2585879 ATTGAAGATTGTTCG-GATCTTATACTCTCTGAAGAAATAGGGGGCAGATGCGATTGATGAAGAT
1 GTTGAAGATTGTTCGAG-TCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATTGTTGAAGAT
* * *
2585943 T-AT-GGGTCTTATACTCTCTGAAGAAATAAGGGGCAGACGCAATC
65 TGTTCGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAGTC
2585987 GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGA--CAAGTTTGTTGAAGA
1 GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAA--TTGTTGAAGA
** *
2586050 -TGATTCAAGTCTTATACCCTCTGAAGAAATAGGG
64 TTG-TTCGGGTCTTATACTCTCTGAAGAAATAGGG
2586084 AGCGAACTCA
Statistics
Matches: 570, Mismatches: 47, Indels: 46
0.86 0.07 0.07
Matches are distributed among these distances:
106 2 0.00
107 39 0.07
108 242 0.42
109 52 0.09
110 235 0.41
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (110 bp):
GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATTGTTGAAGATT
GTTCGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAGTC
Found at i:2594601 original size:81 final size:80
Alignment explanation
Indices: 2594341--2594681 Score: 300
Period size: 80 Copynumber: 4.3 Consensus size: 80
2594331 CAAGTTATTC
* * * *
2594341 AGTTATTCTCATTATGAACTTTTTCTTCGGAAATGTTGA-TAACCTCCTTCTGCGATAGAATCGA
1 AGTTATTCTCATTATGAACTTTTTCTTCAGAAATGTTGATTCACCTCCTTCTGTGATGGAATCGA
* * *
2594405 ACGAAATGTTGAATA
66 GCGAAATGATGAACA
* * * ** * *
2594420 GGTTATTCTCATTATGAACCTTTCCTTCAGAAATACTGATTCACATCTTTCTGTGATGGAATCGA
1 AGTTATTCTCATTATGAACTTTTTCTTCAGAAATGTTGATTCACCTCCTTCTGTGATGGAATCGA
*
2594485 GCGAAATGCTGAACA
66 GCGAAATGATGAACA
* * * * *
2594500 AGTTCTTCTCATTATGAACTTTTTCTTCAGAAATGTTGATTCACCCCCCTCCTATGATGGAATTG
1 AGTTATTCTCATTATGAACTTTTTCTTCAGAAATGTTGATTCA-CCTCCTTCTGTGATGGAATCG
*
2594565 AGTGAAATGATGAACA
65 AGCGAAATGATGAACA
* * * * * * * *
2594581 CGTTTTTCTCATTATAAACTTATTCTCTT-TGAAGTGATAATAT-ACCTCCTTCTATGATGG-AT
1 AGTTATTCTCATTATGAACTT-TT-TCTTCAGAAATGTTGAT-TCACCTCCTTCTGTGATGGAAT
* *
2594643 -GAGTC--AAGGTTGAACA
63 CGAG-CGAAATGATGAACA
*
2594659 AGTTCTTCTCATTATGAACTTTT
1 AGTTATTCTCATTATGAACTTTT
2594682 ATCTCTCATC
Statistics
Matches: 213, Mismatches: 43, Indels: 14
0.79 0.16 0.05
Matches are distributed among these distances:
77 2 0.01
78 27 0.13
79 36 0.17
80 71 0.33
81 61 0.29
82 11 0.05
83 5 0.02
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.38
Consensus pattern (80 bp):
AGTTATTCTCATTATGAACTTTTTCTTCAGAAATGTTGATTCACCTCCTTCTGTGATGGAATCGA
GCGAAATGATGAACA
Found at i:2594679 original size:78 final size:81
Alignment explanation
Indices: 2594425--2594681 Score: 206
Period size: 81 Copynumber: 3.2 Consensus size: 81
2594415 GAATAGGTTA
* * * ** * * * * *
2594425 TTCTCATTATGAACCTTTCCTTCAGAAAT-ACTGATTCA-CATCTTTCTGTGATGGAATCGAGCG
1 TTCTCATTATGAACTTTTTCTTCAGAAATGA-TAATTCACCCCCCTCCTATGATGGAATTGAGTG
* *
2594488 AAATGCTGAACAAGTTC
65 AAAGGATGAACAAGTTC
* *
2594505 TTCTCATTATGAACTTTTTCTTCAGAAATGTTGATTCACCCCCCTCCTATGATGGAATTGAGTGA
1 TTCTCATTATGAACTTTTTCTTCAGAAATGATAATTCACCCCCCTCCTATGATGGAATTGAGTGA
* * *
2594570 AATGATGAACACGTTT
66 AAGGATGAACAAGTTC
* * * * *
2594586 TTCTCATTATAAACTTATTCTCTT-TGAAGTGATAATAT-A-CCTCCTTCTATGATGG-A-TGAG
1 TTCTCATTATGAACTT-TT-TCTTCAGAAATGATAAT-TCACCCCCCTCCTATGATGGAATTGAG
* *
2594646 T-CAAGGTTGAACAAGTTC
63 TGAAAGGATGAACAAGTTC
2594664 TTCTCATTATGAACTTTT
1 TTCTCATTATGAACTTTT
2594682 ATCTCTCATC
Statistics
Matches: 146, Mismatches: 26, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
77 2 0.01
78 27 0.18
79 5 0.03
80 35 0.24
81 61 0.42
82 11 0.08
83 5 0.03
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (81 bp):
TTCTCATTATGAACTTTTTCTTCAGAAATGATAATTCACCCCCCTCCTATGATGGAATTGAGTGA
AAGGATGAACAAGTTC
Found at i:2595607 original size:4 final size:4
Alignment explanation
Indices: 2595598--2595624 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
2595588 TGTTCTTCAA
2595598 ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATA
2595625 TATATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.22, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:2599698 original size:21 final size:21
Alignment explanation
Indices: 2599674--2599765 Score: 78
Period size: 21 Copynumber: 4.2 Consensus size: 21
2599664 ATTATGTAAC
2599674 TTTTAAAAGTTAAATATTATA
1 TTTTAAAAGTTAAATATTATA
* *
2599695 TTTTTAAATTTAAATATTATA
1 TTTTAAAAGTTAAATATTATA
* * *
2599716 TTTTTATCACATGTTAGAT-TATATT
1 -TTTTA--A-AAGTTAAATAT-TATA
*
2599741 TTTTAAAATTTAAATATTATA
1 TTTTAAAAGTTAAATATTATA
2599762 TTTT
1 TTTT
2599766 TATCACATGT
Statistics
Matches: 54, Mismatches: 11, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
21 32 0.59
22 6 0.11
24 7 0.13
25 9 0.17
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.55
Consensus pattern (21 bp):
TTTTAAAAGTTAAATATTATA
Found at i:2599740 original size:23 final size:23
Alignment explanation
Indices: 2599710--2599787 Score: 97
Period size: 23 Copynumber: 3.4 Consensus size: 23
2599700 AAATTTAAAT
2599710 ATTATATTTTTATCACATGTTAG
1 ATTATATTTTTATCACATGTTAG
* * *
2599733 ATTATATTTTT-TAAAAT-TTAAAT
1 ATTATATTTTTATCACATGTT--AG
2599756 ATTATATTTTTATCACATGTTAG
1 ATTATATTTTTATCACATGTTAG
2599779 ATTATATTT
1 ATTATATTT
2599788 ATTTTTAAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
21 2 0.04
22 4 0.09
23 33 0.73
24 4 0.09
25 2 0.04
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.55
Consensus pattern (23 bp):
ATTATATTTTTATCACATGTTAG
Found at i:2599753 original size:46 final size:45
Alignment explanation
Indices: 2599689--2599787 Score: 182
Period size: 46 Copynumber: 2.2 Consensus size: 45
2599679 AAAGTTAAAT
2599689 ATTATA-TTTTTAAATTTAAATATTATATTTTTATCACATGTTAG
1 ATTATATTTTTTAAATTTAAATATTATATTTTTATCACATGTTAG
2599733 ATTATATTTTTTAAAATTTAAATATTATATTTTTATCACATGTTAG
1 ATTATATTTTTT-AAATTTAAATATTATATTTTTATCACATGTTAG
2599779 ATTATATTT
1 ATTATATTT
2599788 ATTTTTAAAT
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
44 6 0.11
45 5 0.09
46 42 0.79
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.56
Consensus pattern (45 bp):
ATTATATTTTTTAAATTTAAATATTATATTTTTATCACATGTTAG
Found at i:2601180 original size:20 final size:20
Alignment explanation
Indices: 2601145--2601197 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 20
2601135 AAGTTTAAAA
*
2601145 AATTAAACAAATTATT-TGT
1 AATTAAACAAATTATTATTT
2601164 --TTAAACAAATTATTATTT
1 AATTAAACAAATTATTATTT
*
2601182 AATTAAATAAATTATT
1 AATTAAACAAATTATT
2601198 CACAACTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
17 14 0.48
18 2 0.07
20 13 0.45
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (20 bp):
AATTAAACAAATTATTATTT
Found at i:2601393 original size:29 final size:29
Alignment explanation
Indices: 2601351--2601407 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
2601341 GGTTATTTCG
* *
2601351 GTTCGGTGAATAATTTTCAAATTAATTTA
1 GTTCGGTGAATAATTTTAAAATAAATTTA
*
2601380 GTTCGGTTAATAATTTTAAAATAAATTT
1 GTTCGGTGAATAATTTTAAAATAAATTT
2601408 TGGTTCAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.37, C:0.05, G:0.12, T:0.46
Consensus pattern (29 bp):
GTTCGGTGAATAATTTTAAAATAAATTTA
Found at i:2601611 original size:29 final size:29
Alignment explanation
Indices: 2601579--2601656 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
2601569 AAAAAAATTG
2601579 ATTAATTTGGTTCGGTTAATAATTTTCAA
1 ATTAATTTGGTTCGGTTAATAATTTTCAA
** *
2601608 ATTAATTCAGTTCGGTTTATAATTTTCAA
1 ATTAATTTGGTTCGGTTAATAATTTTCAA
* *
2601637 ATAAATTTTGGTTCGATTAA
1 ATTAA-TTTGGTTCGGTTAA
2601657 CCAAACCGAA
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
29 30 0.75
30 10 0.25
ACGTcount: A:0.32, C:0.08, G:0.13, T:0.47
Consensus pattern (29 bp):
ATTAATTTGGTTCGGTTAATAATTTTCAA
Found at i:2601728 original size:28 final size:29
Alignment explanation
Indices: 2601696--2601771 Score: 109
Period size: 28 Copynumber: 2.6 Consensus size: 29
2601686 ATTAATTCGG
*
2601696 TTAATTCGGTTCGGTTAATAA-TTTCAAA
1 TTAATTCGGTTCGATTAATAATTTTCAAA
2601724 TTAATTCGGTTCGATTAATAATTTTCAAA
1 TTAATTCGGTTCGATTAATAATTTTCAAA
* *
2601753 TAAATTTTGGTTCGATTAA
1 TTAA-TTCGGTTCGATTAA
2601772 CCGAACCGAA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
28 20 0.47
29 10 0.23
30 13 0.30
ACGTcount: A:0.33, C:0.09, G:0.13, T:0.45
Consensus pattern (29 bp):
TTAATTCGGTTCGATTAATAATTTTCAAA
Found at i:2601753 original size:115 final size:116
Alignment explanation
Indices: 2601580--2601796 Score: 373
Period size: 115 Copynumber: 1.9 Consensus size: 116
2601570 AAAAAATTGA
* * *
2601580 TTAATTTGGTTCGGTTAATAATTTTCAAATTAATTCAGTTCGGTTTATAATTTTCAAATAAATTT
1 TTAATTCGGTTCGGTTAATAATTTTCAAATTAATTCAGTTCGATTAATAATTTTCAAATAAATTT
*
2601645 TGGTTCGATTAACCAAACCGAATTAACTGAATTTTTTCTTCATTAATTCGG
66 TGGTTCGATTAACCAAACCGAATTAACCGAATTTTTTCTTCATTAATTCGG
*
2601696 TTAATTCGGTTCGGTTAATAA-TTTCAAATTAATTCGGTTCGATTAATAATTTTCAAATAAATTT
1 TTAATTCGGTTCGGTTAATAATTTTCAAATTAATTCAGTTCGATTAATAATTTTCAAATAAATTT
*
2601760 TGGTTCGATTAACCGAACCGAATTAACCGAATTTTTT
66 TGGTTCGATTAACCAAACCGAATTAACCGAATTTTTT
2601797 TCTTTAACCT
Statistics
Matches: 95, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
115 75 0.79
116 20 0.21
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.43
Consensus pattern (116 bp):
TTAATTCGGTTCGGTTAATAATTTTCAAATTAATTCAGTTCGATTAATAATTTTCAAATAAATTT
TGGTTCGATTAACCAAACCGAATTAACCGAATTTTTTCTTCATTAATTCGG
Found at i:2602403 original size:28 final size:29
Alignment explanation
Indices: 2602371--2602432 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 29
2602361 AAAAATGTAG
* *
2602371 TAAAAATGAATAAAATAAAGAAGTG-AAA
1 TAAAAATAAATAAAATAAAGAAGAGAAAA
** *
2602399 TAAAAATAAATGCAATAAAGTAGAGAAAA
1 TAAAAATAAATAAAATAAAGAAGAGAAAA
2602428 TAAAA
1 TAAAA
2602433 CAGATAAAGA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 20 0.71
29 8 0.29
ACGTcount: A:0.68, C:0.02, G:0.13, T:0.18
Consensus pattern (29 bp):
TAAAAATAAATAAAATAAAGAAGAGAAAA
Found at i:2602583 original size:15 final size:15
Alignment explanation
Indices: 2602563--2602594 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
2602553 ATACAAAAAT
*
2602563 AAAAATAGAAGATAA
1 AAAAATAAAAGATAA
2602578 AAAAATAAAAGATAA
1 AAAAATAAAAGATAA
2602593 AA
1 AA
2602595 TGAAATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.78, C:0.00, G:0.09, T:0.12
Consensus pattern (15 bp):
AAAAATAAAAGATAA
Found at i:2602765 original size:2 final size:2
Alignment explanation
Indices: 2602758--2602790 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2602748 AAGATAATTA
2602758 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2602791 ATAAGAATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2611908 original size:23 final size:23
Alignment explanation
Indices: 2611882--2611926 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
2611872 GAAGTTTGTA
*
2611882 CCTTT-ACAGCAGATGATGTTTTT
1 CCTTTGACAGCAGAGGA-GTTTTT
*
2611905 CCTTTGATAGCAGAGGAGTTTT
1 CCTTTGACAGCAGAGGAGTTTT
2611927 CTTATAGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.22, C:0.16, G:0.22, T:0.40
Consensus pattern (23 bp):
CCTTTGACAGCAGAGGAGTTTTT
Found at i:2615736 original size:32 final size:31
Alignment explanation
Indices: 2615678--2615785 Score: 89
Period size: 32 Copynumber: 3.5 Consensus size: 31
2615668 ATATATATAT
*
2615678 AAATAAAATACATAAAATAAAGAAGATAATAA
1 AAATAAAATACATAAAATAAAAAAGATAA-AA
*
2615710 CAATAACAATACA-AAAA-AATAAAAGATAAAA
1 AAATAA-AATACATAAAATAA-AAAAGATAAAA
* * *
2615741 AAAT-AAA-AGATAAAATAAAATATATAAAA
1 AAATAAAATACATAAAATAAAAAAGATAAAA
* *
2615770 TAATAAATATATATAA
1 AAATAAA-ATACATAA
2615786 CATATAATTA
Statistics
Matches: 61, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
28 2 0.03
29 18 0.30
30 5 0.08
31 8 0.13
32 22 0.36
33 6 0.10
ACGTcount: A:0.72, C:0.04, G:0.04, T:0.20
Consensus pattern (31 bp):
AAATAAAATACATAAAATAAAAAAGATAAAA
Found at i:2615742 original size:15 final size:15
Alignment explanation
Indices: 2615722--2615755 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
2615712 ATAACAATAC
2615722 AAAAAAATAAAAGAT
1 AAAAAAATAAAAGAT
2615737 AAAAAAATAAAAGAT
1 AAAAAAATAAAAGAT
2615752 AAAA
1 AAAA
2615756 TAAAATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.82, C:0.00, G:0.06, T:0.12
Consensus pattern (15 bp):
AAAAAAATAAAAGAT
Found at i:2615779 original size:14 final size:14
Alignment explanation
Indices: 2615656--2615780 Score: 51
Period size: 15 Copynumber: 8.5 Consensus size: 14
2615646 GCACAAAAAC
2615656 AAATATAAAA-ATAT
1 AAATATAAAATA-AT
*
2615670 ATATATATAAATAA-
1 AAATATA-AAATAAT
* *
2615684 AATACATAAAATAAAG
1 AA-ATATAAAAT-AAT
2615700 AAGATAATAACAATAA-
1 AA-AT-ATAA-AATAAT
* * *
2615716 CAATACAAAAAAAT
1 AAATATAAAATAAT
* *
2615730 AAAAGATAAAAAAAT
1 -AAATATAAAATAAT
*
2615745 AAAAGATAAAATAA-
1 -AAATATAAAATAAT
2615759 AATATATAAAATAAT
1 AA-ATATAAAATAAT
2615774 AAATATA
1 AAATATA
2615781 TATAACATAT
Statistics
Matches: 87, Mismatches: 13, Indels: 22
0.71 0.11 0.18
Matches are distributed among these distances:
13 6 0.07
14 29 0.33
15 38 0.44
16 5 0.06
17 6 0.07
18 3 0.03
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.22
Consensus pattern (14 bp):
AAATATAAAATAAT
Found at i:2615843 original size:48 final size:48
Alignment explanation
Indices: 2615757--2615868 Score: 124
Period size: 48 Copynumber: 2.4 Consensus size: 48
2615747 AAGATAAAAT
* * *
2615757 AAAATATATA-AAATAATAAATATATATAACATATAATT-ATAGTAATA
1 AAAATATATATAAATAATAAATATATATAACAAAGAATTAAAAGT-ATA
2615804 AAAATATATATAAATAAT-AATGATATATGAA-AAAGAATTAAAAGTATA
1 AAAATATATATAAATAATAAAT-ATATAT-AACAAAGAATTAAAAGTATA
* *
2615852 TATATATATATAAATAA
1 AAAATATATATAAATAA
2615869 CGATAGAATA
Statistics
Matches: 56, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
47 13 0.23
48 37 0.66
49 6 0.11
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (48 bp):
AAAATATATATAAATAATAAATATATATAACAAAGAATTAAAAGTATA
Found at i:2615921 original size:2 final size:2
Alignment explanation
Indices: 2615914--2615940 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2615904 AAGATAATTA
2615914 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
2615941 ATAAGAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2618872 original size:16 final size:17
Alignment explanation
Indices: 2618837--2618879 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
2618827 TTATGAGGCA
2618837 AAAAATAATATTATTGT
1 AAAAATAATATTATTGT
2618854 AAAAAT-ATAATTATT-T
1 AAAAATAAT-ATTATTGT
2618870 -AAAATAATAT
1 AAAAATAATAT
2618880 CTAACTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
15 7 0.29
16 5 0.21
17 12 0.50
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (17 bp):
AAAAATAATATTATTGT
Found at i:2621507 original size:20 final size:21
Alignment explanation
Indices: 2621478--2621517 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
2621468 AAGAGATCAT
*
2621478 TTTTTTTTATT-TTTGAAATA
1 TTTTTCTTATTCTTTGAAATA
2621498 TTTTTCTTATTCTTTGAAAT
1 TTTTTCTTATTCTTTGAAAT
2621518 CATGATCTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.68
Consensus pattern (21 bp):
TTTTTCTTATTCTTTGAAATA
Found at i:2634257 original size:50 final size:50
Alignment explanation
Indices: 2634182--2634277 Score: 183
Period size: 50 Copynumber: 1.9 Consensus size: 50
2634172 CGATGATATC
*
2634182 AACAATAGCACAACCAGGGGTAAATTAGATCGAACGAGTGATGGAGTTGT
1 AACAATAGCACAACCAGGGCTAAATTAGATCGAACGAGTGATGGAGTTGT
2634232 AACAATAGCACAACCAGGGCTAAATTAGATCGAACGAGTGATGGAG
1 AACAATAGCACAACCAGGGCTAAATTAGATCGAACGAGTGATGGAG
2634278 AACAACTCCA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 45 1.00
ACGTcount: A:0.40, C:0.16, G:0.27, T:0.18
Consensus pattern (50 bp):
AACAATAGCACAACCAGGGCTAAATTAGATCGAACGAGTGATGGAGTTGT
Found at i:2639235 original size:19 final size:17
Alignment explanation
Indices: 2639216--2639285 Score: 58
Period size: 19 Copynumber: 4.1 Consensus size: 17
2639206 TTTTTGTTAT
*
2639216 TATTATTA-ATTTTATA
1 TATTATTATATTATATA
2639232 TATTACGTTATATTATATA
1 TATTA--TTATATTATATA
2639251 TATTATT-T-TTAT-TA
1 TATTATTATATTATATA
2639265 TATGTATATATATGTATATA
1 TAT-TAT-TATAT-TATATA
2639285 T
1 T
2639286 TTTACTTATT
Statistics
Matches: 44, Mismatches: 1, Indels: 14
0.75 0.02 0.24
Matches are distributed among these distances:
14 5 0.11
15 7 0.16
16 7 0.16
17 3 0.07
18 4 0.09
19 15 0.34
20 3 0.07
ACGTcount: A:0.36, C:0.01, G:0.04, T:0.59
Consensus pattern (17 bp):
TATTATTATATTATATA
Found at i:2639334 original size:3 final size:3
Alignment explanation
Indices: 2639320--2639365 Score: 58
Period size: 3 Copynumber: 15.3 Consensus size: 3
2639310 TTACTATTTA
* *
2639320 TAT TAT TCT TAT TAT T-T TCAT TAT TAC TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT
2639365 T
1 T
2639366 TTGTTTTTAC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
2 2 0.05
3 33 0.89
4 2 0.05
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:2639363 original size:18 final size:18
Alignment explanation
Indices: 2639309--2639363 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
2639299 TTTTATACTC
2639309 ATTACTA-T-TTA-TATT
1 ATTACTATTATTATTATT
2639324 ATT-CTTATTATT-TTCATT
1 ATTAC-TATTATTATT-ATT
2639342 ATTACTATTATTATTATT
1 ATTACTATTATTATTATT
2639360 ATTA
1 ATTA
2639364 TTTTGTTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 11
0.75 0.00 0.25
Matches are distributed among these distances:
14 1 0.03
15 5 0.15
16 1 0.03
17 3 0.09
18 20 0.61
19 3 0.09
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTACTATTATTATTATT
Found at i:2639487 original size:20 final size:20
Alignment explanation
Indices: 2639437--2639489 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 20
2639427 TAATTTATTA
2639437 TTATTTATTATTTCTTTTCT
1 TTATTTATTATTTCTTTTCT
2639457 TT-TCCTT-TTATTAT-TTTTCT
1 TTAT--TTATTATT-TCTTTTCT
2639477 TTATTTATTATTT
1 TTATTTATTATTT
2639490 TTCATATATT
Statistics
Matches: 28, Mismatches: 0, Indels: 11
0.72 0.00 0.28
Matches are distributed among these distances:
19 4 0.14
20 20 0.71
21 4 0.14
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.75
Consensus pattern (20 bp):
TTATTTATTATTTCTTTTCT
Found at i:2639501 original size:17 final size:17
Alignment explanation
Indices: 2639463--2639518 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
2639453 TTCTTTTCCT
*
2639463 TTTATTATTTTTCTTTA
1 TTTATTATTTTTCTATA
2639480 TTTATTATTTTTC-ATA
1 TTTATTATTTTTCTATA
*
2639496 TATTATTTTTATTTCTCATA
1 T-TTATTATT-TTTCT-ATA
2639516 TTT
1 TTT
2639519 TTAGGTTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
16 3 0.09
17 20 0.61
18 4 0.12
19 2 0.06
20 4 0.12
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTATTATTTTTCTATA
Found at i:2639507 original size:20 final size:21
Alignment explanation
Indices: 2639477--2639516 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
2639467 TTATTTTTCT
*
2639477 TTATTTATTATTTTTCATATA
1 TTATTTATTATTTCTCATATA
2639498 TTATTT-TTATTTCTCATAT
1 TTATTTATTATTTCTCATAT
2639517 TTTTAGGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.25, C:0.07, G:0.00, T:0.68
Consensus pattern (21 bp):
TTATTTATTATTTCTCATATA
Found at i:2643502 original size:95 final size:95
Alignment explanation
Indices: 2643334--2643509 Score: 282
Period size: 95 Copynumber: 1.9 Consensus size: 95
2643324 AATAGTATTT
* *
2643334 ATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTATGGATAATATTCAG
1 ATAAAGCATGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTATGGATAAGATTCAG
*
2643399 CTAGCCTGATAAAGGTGATTATACTATACA
66 CTAACCTGATAAAGGTGATTATACTATACA
* * *
2643429 ATAAAGCATGAGTTGTCCCTCTA-AGGCAATTGGTTAAATGCCTCGTCTTTATGGATAAGATTCA
1 ATAAAGCATGAGTTGTCCCTCTAGA-GCAATTGGTTAAACGCCCCGGCTTTATGGATAAGATTCA
2643493 GCTAACCTGATAAAGGT
65 GCTAACCTGATAAAGGT
2643510 ATTTACATAT
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
94 1 0.01
95 73 0.99
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (95 bp):
ATAAAGCATGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTATGGATAAGATTCAG
CTAACCTGATAAAGGTGATTATACTATACA
Found at i:2644874 original size:72 final size:72
Alignment explanation
Indices: 2644754--2644976 Score: 347
Period size: 72 Copynumber: 3.1 Consensus size: 72
2644744 CGATCGCCTC
* * * * *
2644754 CAAGATTATCACTCTTAAAACAGATCTTGTCTCACTTGAGACTATTTTACTTGAAAGAATATTTA
1 CAAGATTGTCATTCTTAAAACAGACCTTGTCTCACTTGAGACTGTTTTACTTGAAAGAAGATTTA
*
2644819 TTTCACT
66 TTTCCCT
* *
2644826 CGAGATTGTCGTTCTTAAAACAGACCTTGTCTCACTTGAGACTGTTTTACTTGAAAGAAGATTTA
1 CAAGATTGTCATTCTTAAAACAGACCTTGTCTCACTTGAGACTGTTTTACTTGAAAGAAGATTTA
2644891 TTTCCCT
66 TTTCCCT
* * *
2644898 CAAGATTGTCATTCTTAAAATAGACTTTGTCTCACTTGAGACTGTTTTACTCGAAAGAAGATTTA
1 CAAGATTGTCATTCTTAAAACAGACCTTGTCTCACTTGAGACTGTTTTACTTGAAAGAAGATTTA
2644963 TTTCCCT
66 TTTCCCT
2644970 CAAGATT
1 CAAGATT
2644977 ATTTCCCTTA
Statistics
Matches: 138, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
72 138 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.38
Consensus pattern (72 bp):
CAAGATTGTCATTCTTAAAACAGACCTTGTCTCACTTGAGACTGTTTTACTTGAAAGAAGATTTA
TTTCCCT
Found at i:2644980 original size:15 final size:16
Alignment explanation
Indices: 2644955--2644984 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2644945 TACTCGAAAG
2644955 AAGATTTATTTCCCTC
1 AAGATTTATTTCCCTC
2644971 AAGA-TTATTTCCCT
1 AAGATTTATTTCCCT
2644985 TAAAACAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.27, C:0.23, G:0.07, T:0.43
Consensus pattern (16 bp):
AAGATTTATTTCCCTC
Found at i:2644987 original size:72 final size:71
Alignment explanation
Indices: 2644766--2645011 Score: 325
Period size: 72 Copynumber: 3.4 Consensus size: 71
2644756 AGATTATCAC
* * * *
2644766 TCTTAAAACAGA-TCTTGTCTCACTTGAGACTATTTTACTTGAAAGAATATTTATTTCACTCGAG
1 TCTTAAAACAGACT-TTGTCTCACTTGAGACTGTTTTACTTGAAAGAAGATTTATTTCCCTCAAG
2644830 ATTGTCGT
65 ATTGTC-T
*
2644838 TCTTAAAACAGACCTTGTCTCACTTGAGACTGTTTTACTTGAAAGAAGATTTATTTCCCTCAAGA
1 TCTTAAAACAGACTTTGTCTCACTTGAGACTGTTTTACTTGAAAGAAGATTTATTTCCCTCAAGA
2644903 TTGTCAT
66 TTGTC-T
* *
2644910 TCTTAAAATAGACTTTGTCTCACTTGAGACTGTTTTACTCGAAAGAAGATTTATTTCCCTCAAGA
1 TCTTAAAACAGACTTTGTCTCACTTGAGACTGTTTTACTTGAAAGAAGATTTATTTCCCTCAAGA
*
2644975 TTAT-T
66 TTGTCT
* * *
2644980 TCCCTTAAAACAAGATTTTATCTCGCTTGAGA
1 T--CTTAAAAC-AGACTTTGTCTCACTTGAGA
2645012 TAGTTTCCCT
Statistics
Matches: 156, Mismatches: 14, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
70 2 0.01
72 137 0.88
73 17 0.11
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (71 bp):
TCTTAAAACAGACTTTGTCTCACTTGAGACTGTTTTACTTGAAAGAAGATTTATTTCCCTCAAGA
TTGTCT
Found at i:2645019 original size:37 final size:37
Alignment explanation
Indices: 2644978--2645067 Score: 90
Period size: 39 Copynumber: 2.4 Consensus size: 37
2644968 CTCAAGATTA
* * *
2644978 TTTCCCTTAAAACAAGATTTTATCTCGCTTGAGATAG
1 TTTCCCTTAAAACAAAATTTTATCTCCCTTGAGACAG
* * *
2645015 TTTCCCTCGAAACAGAAAATTTTGTCTCCCTTGAGACAG
1 TTTCCCT-TAAA-ACAAAATTTTATCTCCCTTGAGACAG
* *
2645054 TTTCTCTTGAAACA
1 TTTCCCTTAAAACA
2645068 TAAACATTGA
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
37 9 0.22
38 5 0.12
39 27 0.66
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.36
Consensus pattern (37 bp):
TTTCCCTTAAAACAAAATTTTATCTCCCTTGAGACAG
Found at i:2645152 original size:39 final size:39
Alignment explanation
Indices: 2645097--2645171 Score: 105
Period size: 39 Copynumber: 1.9 Consensus size: 39
2645087 CCTTGAAATG
* *
2645097 AATTTTGTCTCTCTTGAGATAGTTTCCCTCGAAACAGAA
1 AATTTTGTCTCCCTTGAGACAGTTTCCCTCGAAACAGAA
* * *
2645136 AATTTTTTCTCCCTTGAGACAGTTTCTCTTGAAACA
1 AATTTTGTCTCCCTTGAGACAGTTTCCCTCGAAACA
2645172 TAAACATTGA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 31 1.00
ACGTcount: A:0.27, C:0.21, G:0.13, T:0.39
Consensus pattern (39 bp):
AATTTTGTCTCCCTTGAGACAGTTTCCCTCGAAACAGAA
Found at i:2645174 original size:104 final size:102
Alignment explanation
Indices: 2644994--2645524 Score: 697
Period size: 104 Copynumber: 5.0 Consensus size: 102
2644984 TTAAAACAAG
* * *
2644994 ATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAGAAAATTTTGTCTCCCTTGAGACAGTTTCT
1 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAAC--AAAATTTTGTCTCCCTTGAGACAGTTTCT
2645059 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGA
64 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGA
* *
2645098 ATTTTGTCTCTCTTGAGATAGTTTCCCTCGAAACAGAAAATTTTTTCTCCCTTGAGACAGTTTCT
1 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAAC--AAAATTTTGTCTCCCTTGAGACAGTTTCT
2645163 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGA
64 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGA
* * *
2645202 ATTTTGTCTCTTTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAAACAAAATTTTG
1 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGAC---A-GTT-
*
2645267 TCTCCCTTGAGATACTTTCTCTTGAAACATAAACATTGGAAACATTTCCCTTGAAATGA
61 TCT--CTT--G--A----------A-ACATAAACATTGAAAACATTTCCCTTGAAATGA
2645326 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAAC-AAATTTTGTCTCCCTTGAGACAGTTTCTCT
1 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCT
*
2645390 TGAAATATAAACATTGAAAACATTTCCCTTGAAATGA
66 TGAAACATAAACATTGAAAACATTTCCCTTGAAATGA
*
2645427 ATTTTCTCTCTCTTGAGATAGTTTCCCTTGAAAC-AAATTTTGTCTCCCTTGAGACAGTTTCTCT
1 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCT
*
2645491 TGAAACATAAACTTTGAAAACAGTTTCCCTTGAA
66 TGAAACATAAACATTGAAAACA-TTTCCCTTGAA
2645525 CAAAACATTT
Statistics
Matches: 387, Mismatches: 17, Indels: 48
0.86 0.04 0.11
Matches are distributed among these distances:
101 114 0.29
102 32 0.08
104 133 0.34
105 1 0.00
106 2 0.01
107 3 0.01
109 3 0.01
111 1 0.00
112 1 0.00
113 1 0.00
114 1 0.00
116 3 0.01
118 3 0.01
119 2 0.01
120 1 0.00
123 21 0.05
124 65 0.17
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (102 bp):
ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCT
TGAAACATAAACATTGAAAACATTTCCCTTGAAATGA
Found at i:2645226 original size:65 final size:64
Alignment explanation
Indices: 2645136--2645360 Score: 264
Period size: 65 Copynumber: 3.6 Consensus size: 64
2645126 CGAAACAGAA
* * * *
2645136 AATTTTTTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATG
1 AATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACATAAACATTG-AAACATTTCCCTTGAAATG
* ** * **
2645201 AATTTTGTCTCTTTTGAGATAGTTTCCCTTGAAACA-AAATTTTG-----TCTCCCTTGAAACAA
1 AATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACATAAACATTGAAACATTTCCCTTGAAA-TG
* * *
2645260 AATTTTGTCTCCCTTGAGATACTTTCTCTTGAAACATAAACATTGGAAACATTTCCCTTGAAATG
1 AATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACATAAACATT-GAAACATTTCCCTTGAAATG
2645325 AATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACA
1 AATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACA
2645361 AATTTTGTCT
Statistics
Matches: 130, Mismatches: 22, Indels: 16
0.77 0.13 0.10
Matches are distributed among these distances:
58 11 0.08
59 32 0.25
60 5 0.04
61 1 0.01
64 6 0.05
65 64 0.49
66 11 0.08
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.39
Consensus pattern (64 bp):
AATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACATAAACATTGAAACATTTCCCTTGAAATG
Found at i:2645253 original size:22 final size:22
Alignment explanation
Indices: 2645225--2645276 Score: 104
Period size: 22 Copynumber: 2.4 Consensus size: 22
2645215 TGAGATAGTT
2645225 TCCCTTGAAACAAAATTTTGTC
1 TCCCTTGAAACAAAATTTTGTC
2645247 TCCCTTGAAACAAAATTTTGTC
1 TCCCTTGAAACAAAATTTTGTC
2645269 TCCCTTGA
1 TCCCTTGA
2645277 GATACTTTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.29, C:0.25, G:0.10, T:0.37
Consensus pattern (22 bp):
TCCCTTGAAACAAAATTTTGTC
Found at i:2645265 original size:59 final size:58
Alignment explanation
Indices: 2645189--2645377 Score: 200
Period size: 59 Copynumber: 3.1 Consensus size: 58
2645179 TGAAAACATT
** *
2645189 TCCCTTGAAATGAATTTTGTCTCTTTTGAGATAGTTTCCCTTGAAACAAAATTTTGTC
1 TCCCTTGAAAAAAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTC
* * * * *
2645247 TCCCTTGAAACAAAATTTTGTCTCCCTTGAGATACTTTCTCTTGAAACATAAACATTGGAAACAT
1 TCCCTTGAAA-AAAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACA-AAA-TTTTG-----T
*
2645312 T
58 C
**
2645313 TCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAAC-AAATTTTGTC
1 TCCCTTGAAAAAAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTC
2645370 TCCCTTGA
1 TCCCTTGA
2645378 GACAGTTTCT
Statistics
Matches: 106, Mismatches: 17, Indels: 17
0.76 0.12 0.12
Matches are distributed among these distances:
57 9 0.08
58 10 0.09
59 32 0.30
60 3 0.03
61 3 0.03
62 3 0.03
63 3 0.03
65 32 0.30
66 11 0.10
ACGTcount: A:0.28, C:0.20, G:0.13, T:0.40
Consensus pattern (58 bp):
TCCCTTGAAAAAAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTC
Found at i:2645286 original size:124 final size:123
Alignment explanation
Indices: 2645134--2645377 Score: 434
Period size: 124 Copynumber: 2.0 Consensus size: 123
2645124 CTCGAAACAG
* *
2645134 AAAATTTTTTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAA
1 AAAATTTTGTCTCCCTTGAGACACTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAA
*
2645199 TGAATTTTGTCTCTTTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAAAC
66 TGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAAC-AAATTTTGTCTCCCTTGAAAC
* *
2645258 AAAATTTTGTCTCCCTTGAGATACTTTCTCTTGAAACATAAACATTGGAAACATTTCCCTTGAAA
1 AAAATTTTGTCTCCCTTGAGACACTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAA
2645323 TGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAATTTTGTCTCCCTTGA
66 TGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAATTTTGTCTCCCTTGA
2645378 GACAGTTTCT
Statistics
Matches: 115, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
123 18 0.16
124 97 0.84
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.39
Consensus pattern (123 bp):
AAAATTTTGTCTCCCTTGAGACACTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAA
TGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAAAC
Found at i:2645358 original size:36 final size:36
Alignment explanation
Indices: 2645311--2645396 Score: 127
Period size: 36 Copynumber: 2.4 Consensus size: 36
2645301 ATTGGAAACA
* * *
2645311 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAG
1 TTTCCCTTGAAATAAATTTTGTCTCCCTTGAGACAG
*
2645347 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAATAAATTTTGTCTCCCTTGAGACAG
*
2645383 TTTCTCTTGAAATA
1 TTTCCCTTGAAATA
2645397 TAAACATTGA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 44 1.00
ACGTcount: A:0.24, C:0.20, G:0.14, T:0.42
Consensus pattern (36 bp):
TTTCCCTTGAAATAAATTTTGTCTCCCTTGAGACAG
Found at i:2645377 original size:101 final size:101
Alignment explanation
Indices: 2645247--2645524 Score: 484
Period size: 101 Copynumber: 2.7 Consensus size: 101
2645237 AAATTTTGTC
* * *
2645247 TCCCTTGAAACAAAATTTTGTCTCCCTTGAGATACTTTCTCTTGAAACATAAACATTGGAAACAT
1 TCCCTTGAAAC-AAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACAT
*
2645312 TTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTT
65 TTCCCTTGAAATGAATTTTCTCTCTCTTGAGATAGTT
*
2645349 TCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAATATAAACATTGAAAACATT
1 TCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATT
2645414 TCCCTTGAAATGAATTTTCTCTCTCTTGAGATAGTT
66 TCCCTTGAAATGAATTTTCTCTCTCTTGAGATAGTT
*
2645450 TCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACTTTGAAAACAGT
1 TCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA-T
2645515 TTCCCTTGAA
65 TTCCCTTGAA
2645525 CAAAACATTT
Statistics
Matches: 168, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
101 146 0.87
102 22 0.13
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.37
Consensus pattern (101 bp):
TCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATT
TCCCTTGAAATGAATTTTCTCTCTCTTGAGATAGTT
Found at i:2645459 original size:36 final size:36
Alignment explanation
Indices: 2645412--2645497 Score: 118
Period size: 36 Copynumber: 2.4 Consensus size: 36
2645402 ATTGAAAACA
** * *
2645412 TTTCCCTTGAAATGAATTTTCTCTCTCTTGAGATAG
1 TTTCCCTTGAAACAAATTTTCTCTCCCTTGAGACAG
*
2645448 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACAAATTTTCTCTCCCTTGAGACAG
*
2645484 TTTCTCTTGAAACA
1 TTTCCCTTGAAACA
2645498 TAAACTTTGA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 44 1.00
ACGTcount: A:0.24, C:0.22, G:0.13, T:0.41
Consensus pattern (36 bp):
TTTCCCTTGAAACAAATTTTCTCTCCCTTGAGACAG
Found at i:2645514 original size:30 final size:30
Alignment explanation
Indices: 2645480--2645557 Score: 99
Period size: 29 Copynumber: 2.7 Consensus size: 30
2645470 CTCCCTTGAG
2645480 ACAGTTTCTCTTGAAACATAAAC-TTTGAAA
1 ACAGTTTCTCTTGAAACA-AAACATTTGAAA
* *
2645510 ACAGTTTCCCTTG-AACAAAACATTTGAAT
1 ACAGTTTCTCTTGAAACAAAACATTTGAAA
*
2645539 A-TGTTTCTCTTGAAACAAA
1 ACAGTTTCTCTTGAAACAAA
2645558 GTTTTGCCTC
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
28 13 0.31
29 17 0.40
30 12 0.29
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.33
Consensus pattern (30 bp):
ACAGTTTCTCTTGAAACAAAACATTTGAAA
Found at i:2645618 original size:95 final size:97
Alignment explanation
Indices: 2645338--2645654 Score: 276
Period size: 101 Copynumber: 3.2 Consensus size: 97
2645328 TTTGTCTCTC
* * * * *
2645338 TTGAGATA-GTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAATATAAAC
1 TTGA-ATATGTTTCTCTTGAAACAAATTTTGCCTCCCTGGAGACAGTTTCTCTTGAAACAAAAAC
* * *** *
2645402 ATTGAAAACA-TTTCCCTTGAA-ATGAATTTTCTCTCT
65 TTTGAAAACAGTTTCCCTTGAACA-CAA---AAAC-AT
* * * *
2645438 CTTGAGATA-GTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAA
1 -TTGA-ATATGTTTCTCTTGAAACAAATTTTGCCTCCCTGGAGACAGTTTCTCTTGAAACAAAAA
2645502 CTTTGAAAACAGTTTCCCTTG-A-AC-AAAACAT
64 CTTTGAAAACAGTTTCCCTTGAACACAAAAACAT
2645533 TTGAATATGTTTCTCTTGAAACAAAGTTTTGCCTCCCTGGAGACAGTTTCTCTTGAAA-AAAAAC
1 TTGAATATGTTTCTCTTGAAACAAA-TTTTGCCTCCCTGGAGACAGTTTCTCTTGAAACAAAAA-
* * *
2645597 CTTTGAAATC-GTTTTCTCTTGAAACACAAAAACCT
64 CTTTGAAAACAG-TTTCCCTTG-AACACAAAAACAT
*
2645632 TTGAA-ATCGTTTCTCTTGGAACA
1 TTGAATAT-GTTTCTCTTGAAACA
2645655 TAAAAAGAAA
Statistics
Matches: 191, Mismatches: 15, Indels: 22
0.84 0.07 0.10
Matches are distributed among these distances:
93 3 0.02
94 25 0.13
95 48 0.25
96 1 0.01
97 1 0.01
98 4 0.02
99 26 0.14
101 74 0.39
102 9 0.05
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (97 bp):
TTGAATATGTTTCTCTTGAAACAAATTTTGCCTCCCTGGAGACAGTTTCTCTTGAAACAAAAACT
TTGAAAACAGTTTCCCTTGAACACAAAAACAT
Found at i:2645703 original size:36 final size:35
Alignment explanation
Indices: 2645588--2645727 Score: 180
Period size: 36 Copynumber: 4.0 Consensus size: 35
2645578 GTTTCTCTTG
2645588 AAAAAAAACCTTTGAAATCGTTTTCTCTTGAAAC--
1 AAAAAAAACCTTTGAAATCG-TTTCTCTTGAAACAA
* *
2645622 -ACAAAAACCTTTGAAATCGTTTCTCTTGGAACATA
1 AAAAAAAACCTTTGAAATCGTTTCTCTTGAAACA-A
*
2645657 AAAAGAAAACCTTTGAAATTGTTTCTCTTGAAACAA
1 AAAA-AAAACCTTTGAAATCGTTTCTCTTGAAACAA
2645693 AAAAGAAAACCTTTGAACAT-GTTTCTCTTGAAACA
1 AAAA-AAAACCTTTGAA-ATCGTTTCTCTTGAAACA
2645728 CCAAAGCTTT
Statistics
Matches: 95, Mismatches: 5, Indels: 10
0.86 0.05 0.09
Matches are distributed among these distances:
32 12 0.13
33 18 0.19
36 35 0.37
37 30 0.32
ACGTcount: A:0.41, C:0.17, G:0.11, T:0.31
Consensus pattern (35 bp):
AAAAAAAACCTTTGAAATCGTTTCTCTTGAAACAA
Found at i:2645717 original size:73 final size:69
Alignment explanation
Indices: 2645588--2645727 Score: 185
Period size: 73 Copynumber: 2.0 Consensus size: 69
2645578 GTTTCTCTTG
* *
2645588 AAAAAAAACCTTTGAAATCGTTTTCTCTTGAAACACAAAAACCTTTGAAATCGTTTCTCTTGGAA
1 AAAAAAAACCTTTGAAATCGTTTTCTCTTGAAACAAAAAAACCTTTGAAATCGTTTCTCTTGAAA
2645653 CATA
66 CATA
*
2645657 AAAAGAAAACCTTTGAAATTG-TTTCTCTTGAAACAAAAAAGAAAACCTTTGAACAT-GTTTCTC
1 AAAA-AAAACCTTTGAAATCGTTTTCTCTTGAAAC---AAA-AAAACCTTTGAA-ATCGTTTCTC
2645720 TTGAAACA
60 TTGAAACA
2645728 CCAAAGCTTT
Statistics
Matches: 62, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
69 17 0.27
70 15 0.24
72 2 0.03
73 26 0.42
74 2 0.03
ACGTcount: A:0.41, C:0.17, G:0.11, T:0.31
Consensus pattern (69 bp):
AAAAAAAACCTTTGAAATCGTTTTCTCTTGAAACAAAAAAACCTTTGAAATCGTTTCTCTTGAAA
CATA
Found at i:2647154 original size:6 final size:6
Alignment explanation
Indices: 2647143--2647306 Score: 90
Period size: 6 Copynumber: 26.3 Consensus size: 6
2647133 ATAATTTTTG
* *
2647143 TTATTA TTATTA TTTTTA TATATTA CGTTA-TA TTA-TA TATATTA TTGTTA
1 TTATTA TTATTA TTATTA T-TATTA --TTATTA TTATTA T-TATTA TTATTA
* * *
2647193 TTA-TA TGTATATA TATATATA TT-TTA CTTATTTC TTTTTA -TACTCA
1 TTATTA T-TAT-TA T-TAT-TA TTATTA -TTA-TTA TTATTA TTA-TTA
* * *
2647239 TTACTA TT-TCTA TTATTC TTATTA TT-TTCA TTATCA TTATTA TTATTA
1 TTATTA TTAT-TA TTATTA TTATTA TTATT-A TTATTA TTATTA TTATTA
2647287 TTATTA TTATTA TTATTA TT
1 TTATTA TTATTA TTATTA TT
2647307 TTGTTTTTAC
Statistics
Matches: 124, Mismatches: 17, Indels: 34
0.71 0.10 0.19
Matches are distributed among these distances:
5 14 0.11
6 79 0.64
7 16 0.13
8 14 0.11
9 1 0.01
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (6 bp):
TTATTA
Found at i:2647261 original size:9 final size:9
Alignment explanation
Indices: 2647249--2647306 Score: 82
Period size: 9 Copynumber: 6.4 Consensus size: 9
2647239 TTACTATTTC
*
2647249 TATTATTCT
1 TATTATTAT
2647258 TATTATT-T
1 TATTATTAT
*
2647266 TCATTATCAT
1 T-ATTATTAT
2647276 TATTATTAT
1 TATTATTAT
2647285 TATTATTAT
1 TATTATTAT
2647294 TATTATTAT
1 TATTATTAT
2647303 TATT
1 TATT
2647307 TTGTTTTTAC
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
8 2 0.04
9 41 0.91
10 2 0.04
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (9 bp):
TATTATTAT
Found at i:2647448 original size:20 final size:21
Alignment explanation
Indices: 2647416--2647455 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
2647406 TATTTTTTCT
*
2647416 TTATTTATTATTTTTCATATA
1 TTATTTATTATTTCTCATATA
2647437 TTATTT-TTATTTCTCATAT
1 TTATTTATTATTTCTCATAT
2647456 TTTTAGGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.25, C:0.07, G:0.00, T:0.68
Consensus pattern (21 bp):
TTATTTATTATTTCTCATATA
Found at i:2649131 original size:345 final size:337
Alignment explanation
Indices: 2648502--2649331 Score: 1301
Period size: 345 Copynumber: 2.4 Consensus size: 337
2648492 TTTATTTTTT
* *
2648502 ATAATAATAATTTTTTTATAATTTTAAAAATTATAAATTTCATATA-TTTTGAAAAAAATATTTT
1 ATAATAATAAATATTTTATAATTTTAAAAATTATAAATTTCATATATTTTTGAAAAAAATATTTT
* * *
2648566 CTTTTAAAATTAATTGTTTAAAAATATAAAATAAATATTAAAATAAACTTTTAATTATAATTAAG
66 CTTTTAAAATTAATTGTTTAAAAATATAAAAAAAATATTAAAATAAACTTTTAATTACAATTGAG
* *
2648631 GAATTAAATGAATTATTATTCATTAATTTTTATTTTTAACAATAATTAATAATGTTTATTCATTT
131 GGATTAAATGAATTATTATTCATTAATTTTTATTTTTAACAATAATTAATAATGTTTAATCATTT
** * *
2648696 TTAATAAAATTATTTTTATTTTTGTATTAAAATTGCACAATACGTATAATCTAATATAGGAAAAT
196 TTAATAAAATTATTTAAATTTTTGTATTAAAATTACACAATACATATAATCTAATATA-GAAAAT
2648761 GTTGAGGGTAAGTATTTTAAAATATGAATAATTTTATAAAAGTTTTATAACTAGTATTTCTTTTA
260 GTTGAGGGTAAGTATTTTAAAATATGAATAATTTTATAAAAGTTTTATAACTAGTATTTCTTTTA
2648826 CAAAATGATGATGATG
325 CAAAATGAT--T-ATG
2648842 ATAATAATAATAAATATTTTATAATTTTAAAAATTATAAATTTCATATATTTTTGAAAAAAATAT
1 ---ATAATAATAAATATTTTATAATTTTAAAAATTATAAATTTCATATATTTTTGAAAAAAATAT
2648907 TTTCTTTTAAAATTAATTGTTTAAAAATATAAAAAAAATATTAAAATAAACTTTTAATTACAATT
63 TTTCTTTTAAAATTAATTGTTTAAAAATATAAAAAAAATATTAAAATAAACTTTTAATTACAATT
* **
2648972 GAGGGATCAAATGAATTATTATTCATTAATTTTTAATTTTTAACAATGGTTAATAATGTTTAATC
128 GAGGGATTAAATGAATTATTATTCATTAATTTTT-ATTTTTAACAATAATTAATAATGTTTAATC
2649037 ATTTTTAATAAAATTATTTAAATTTTTGTATTAAAATTACACAATACATATAATCTAGCATATA-
192 ATTTTTAATAAAATTATTTAAATTTTTGTATTAAAATTACACAATACATATAATCTA--ATATAG
2649101 AAAACT-TTGAGGGTAAGTATTTTAAAATATGAATAATTTTATAAAAGTTTTATAACTAGTATTT
255 AAAA-TGTTGAGGGTAAGTATTTTAAAATATGAATAATTTTATAAAAGTTTTATAACTAGTATTT
*
2649165 CTTTTATAAAATGATTATG
319 CTTTTACAAAATGATTATG
* * * * **
2649184 ATGATGATAAATATTTTATAATTTAAAAAATTATAAATTTCATATATTTTTGAAAAAATTATTGC
1 ATAATAATAAATATTTTATAATTTTAAAAATTATAAATTTCATATATTTTTGAAAAAAATATTTT
* * * *
2649249 CTTTTAAAATTAATTGTTTAAAAATAT--AAAAAATATTAAAATAAATTTTTAATTTCAAATGAA
66 CTTTTAAAATTAATTGTTTAAAAATATAAAAAAAATATTAAAATAAACTTTTAATTACAATTGAG
2649312 GGATTAAATGAATTATTATT
131 GGATTAAATGAATTATTATT
2649332 TAATAATATT
Statistics
Matches: 456, Mismatches: 26, Indels: 16
0.92 0.05 0.03
Matches are distributed among these distances:
337 51 0.11
339 86 0.19
342 3 0.01
343 45 0.10
344 109 0.24
345 156 0.34
346 1 0.00
347 5 0.01
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.44
Consensus pattern (337 bp):
ATAATAATAAATATTTTATAATTTTAAAAATTATAAATTTCATATATTTTTGAAAAAAATATTTT
CTTTTAAAATTAATTGTTTAAAAATATAAAAAAAATATTAAAATAAACTTTTAATTACAATTGAG
GGATTAAATGAATTATTATTCATTAATTTTTATTTTTAACAATAATTAATAATGTTTAATCATTT
TTAATAAAATTATTTAAATTTTTGTATTAAAATTACACAATACATATAATCTAATATAGAAAATG
TTGAGGGTAAGTATTTTAAAATATGAATAATTTTATAAAAGTTTTATAACTAGTATTTCTTTTAC
AAAATGATTATG
Found at i:2649369 original size:26 final size:27
Alignment explanation
Indices: 2649329--2649388 Score: 70
Period size: 26 Copynumber: 2.2 Consensus size: 27
2649319 ATGAATTATT
**
2649329 ATTTAATAATATTTTCAAAA-TATATGAA
1 ATTT-ATAATATTTT-AAAATTATAAAAA
2649357 ATTTATAA-ATTTTAAAATTATAAAAA
1 ATTTATAATATTTTAAAATTATAAAAA
2649383 ATTTAT
1 ATTTAT
2649389 TATTATAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 4 0.14
26 17 0.59
27 4 0.14
28 4 0.14
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (27 bp):
ATTTATAATATTTTAAAATTATAAAAA
Done.